Query 010728
Match_columns 502
No_of_seqs 294 out of 1300
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 03:53:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010728.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010728hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14215 bHLH-MYC_N: bHLH-MYC 100.0 4.1E-54 8.9E-59 402.2 11.8 163 48-231 1-163 (163)
2 cd00083 HLH Helix-loop-helix d 99.3 7E-12 1.5E-16 97.5 5.8 52 355-406 5-59 (60)
3 smart00353 HLH helix loop heli 99.3 9.3E-12 2E-16 94.8 6.1 49 359-407 1-52 (53)
4 PF00010 HLH: Helix-loop-helix 99.2 1.3E-11 2.9E-16 95.1 5.3 48 356-403 3-55 (55)
5 KOG1318 Helix loop helix trans 98.7 3.2E-08 6.9E-13 104.2 6.3 53 356-408 235-291 (411)
6 KOG1319 bHLHZip transcription 98.3 4.7E-07 1E-11 85.6 4.9 62 356-417 64-132 (229)
7 KOG2483 Upstream transcription 98.1 8.4E-06 1.8E-10 80.7 8.6 68 350-417 55-125 (232)
8 cd04897 ACT_ACR_3 ACT domain-c 98.1 2.8E-05 6E-10 64.3 9.4 64 438-501 3-73 (75)
9 KOG4304 Transcriptional repres 98.0 3.7E-06 7.9E-11 84.3 3.7 54 356-409 34-95 (250)
10 cd04895 ACT_ACR_1 ACT domain-c 98.0 7.7E-05 1.7E-09 61.2 9.7 64 438-501 3-69 (72)
11 KOG3561 Aryl-hydrocarbon recep 97.9 7.8E-06 1.7E-10 92.8 4.9 50 356-405 22-75 (803)
12 cd04896 ACT_ACR-like_3 ACT dom 97.8 0.0002 4.3E-09 59.2 9.0 64 438-501 2-73 (75)
13 cd04927 ACT_ACR-like_2 Second 97.7 0.00031 6.7E-09 57.8 9.4 51 437-487 1-52 (76)
14 KOG3960 Myogenic helix-loop-he 97.5 0.0002 4.4E-09 70.9 6.5 62 355-416 119-182 (284)
15 KOG2588 Predicted DNA-binding 97.5 9E-05 2E-09 84.6 4.2 65 351-415 273-338 (953)
16 cd04900 ACT_UUR-like_1 ACT dom 97.5 0.0012 2.6E-08 53.5 9.6 63 438-500 3-69 (73)
17 KOG0561 bHLH transcription fac 97.3 0.00016 3.5E-09 73.2 3.7 51 359-409 65-117 (373)
18 cd04925 ACT_ACR_2 ACT domain-c 97.2 0.0029 6.2E-08 51.6 9.3 64 438-501 2-73 (74)
19 cd04928 ACT_TyrKc Uncharacteri 97.2 0.0031 6.7E-08 51.2 9.1 63 438-500 3-67 (68)
20 PLN03217 transcription factor 97.0 0.0019 4.1E-08 54.1 6.2 51 367-417 20-76 (93)
21 cd04899 ACT_ACR-UUR-like_2 C-t 97.0 0.0086 1.9E-07 47.2 9.6 50 438-487 2-51 (70)
22 KOG4029 Transcription factor H 96.9 0.00092 2E-08 66.1 4.3 60 354-413 109-172 (228)
23 cd04926 ACT_ACR_4 C-terminal 96.7 0.02 4.3E-07 46.3 9.9 64 437-500 2-67 (72)
24 PF13740 ACT_6: ACT domain; PD 96.3 0.027 5.9E-07 46.0 8.4 63 436-498 2-64 (76)
25 cd04873 ACT_UUR-ACR-like ACT d 96.2 0.043 9.4E-07 42.8 8.7 49 438-486 2-50 (70)
26 PF01842 ACT: ACT domain; Int 96.1 0.035 7.6E-07 42.8 7.7 62 438-499 2-64 (66)
27 PRK05007 PII uridylyl-transfer 96.0 0.024 5.2E-07 66.6 9.5 69 433-501 805-879 (884)
28 cd04893 ACT_GcvR_1 ACT domains 95.9 0.065 1.4E-06 43.9 9.1 62 437-498 2-63 (77)
29 PRK01759 glnD PII uridylyl-tra 95.7 0.037 8.1E-07 64.8 9.1 69 433-501 780-854 (854)
30 PF13291 ACT_4: ACT domain; PD 95.5 0.19 4E-06 41.0 10.2 51 436-486 6-58 (80)
31 cd04872 ACT_1ZPV ACT domain pr 95.3 0.086 1.9E-06 44.1 7.6 62 437-498 2-65 (88)
32 cd04869 ACT_GcvR_2 ACT domains 95.2 0.17 3.7E-06 41.1 9.1 60 439-498 2-68 (81)
33 PRK00275 glnD PII uridylyl-tra 95.0 0.11 2.4E-06 61.2 10.2 68 434-501 812-886 (895)
34 PRK00194 hypothetical protein; 94.9 0.13 2.8E-06 43.0 7.7 63 436-498 3-67 (90)
35 PRK04374 PII uridylyl-transfer 94.8 0.13 2.9E-06 60.3 10.1 68 434-501 794-867 (869)
36 cd04870 ACT_PSP_1 CT domains f 94.5 0.23 4.9E-06 40.3 8.0 61 439-499 2-63 (75)
37 cd04875 ACT_F4HF-DF N-terminal 94.5 0.34 7.4E-06 38.9 8.9 60 439-498 2-65 (74)
38 PRK05092 PII uridylyl-transfer 94.2 0.24 5.2E-06 58.7 10.5 68 434-501 841-915 (931)
39 PRK03059 PII uridylyl-transfer 94.1 0.2 4.4E-06 58.8 9.4 68 434-501 784-855 (856)
40 cd04887 ACT_MalLac-Enz ACT_Mal 94.0 0.55 1.2E-05 37.3 9.1 48 439-486 2-50 (74)
41 cd04886 ACT_ThrD-II-like C-ter 94.0 0.35 7.6E-06 37.3 7.8 48 439-486 1-53 (73)
42 PRK03381 PII uridylyl-transfer 93.8 0.29 6.3E-06 56.8 9.9 65 435-500 706-772 (774)
43 KOG4447 Transcription factor T 93.7 0.055 1.2E-06 50.3 3.0 51 354-404 78-130 (173)
44 TIGR01693 UTase_glnD [Protein- 93.6 0.27 5.9E-06 57.6 9.3 54 434-487 777-830 (850)
45 COG2844 GlnD UTP:GlnB (protein 93.0 0.37 8.1E-06 55.5 8.9 63 426-488 779-843 (867)
46 PRK03381 PII uridylyl-transfer 93.0 0.56 1.2E-05 54.6 10.5 68 434-501 597-667 (774)
47 PRK05007 PII uridylyl-transfer 92.9 0.53 1.1E-05 55.5 10.3 69 433-501 698-773 (884)
48 TIGR01693 UTase_glnD [Protein- 92.9 0.57 1.2E-05 55.0 10.5 68 434-501 666-741 (850)
49 PRK01759 glnD PII uridylyl-tra 92.4 0.66 1.4E-05 54.6 10.1 69 433-501 674-749 (854)
50 KOG3560 Aryl-hydrocarbon recep 92.4 0.11 2.3E-06 57.0 3.4 39 362-400 33-75 (712)
51 cd04888 ACT_PheB-BS C-terminal 92.1 1.3 2.7E-05 35.2 8.6 49 438-486 2-51 (76)
52 PRK03059 PII uridylyl-transfer 91.7 0.88 1.9E-05 53.5 10.1 68 434-501 676-750 (856)
53 cd04894 ACT_ACR-like_1 ACT dom 91.6 0.9 1.9E-05 36.5 6.8 62 438-499 2-67 (69)
54 KOG3910 Helix loop helix trans 91.4 0.099 2.1E-06 56.6 1.8 56 354-409 526-585 (632)
55 cd04876 ACT_RelA-SpoT ACT dom 91.2 2.2 4.7E-05 31.5 8.7 48 439-486 1-49 (71)
56 cd02116 ACT ACT domains are co 90.5 1.5 3.3E-05 30.5 6.9 35 439-473 1-35 (60)
57 KOG3559 Transcriptional regula 90.1 0.25 5.5E-06 52.5 3.3 43 360-402 7-53 (598)
58 cd04874 ACT_Af1403 N-terminal 90.1 2.4 5.3E-05 32.6 8.3 47 438-486 2-49 (72)
59 KOG3558 Hypoxia-inducible fact 90.0 0.21 4.6E-06 56.2 2.8 43 359-401 51-97 (768)
60 PRK00275 glnD PII uridylyl-tra 89.6 1.5 3.3E-05 51.8 9.6 67 435-501 703-778 (895)
61 PRK04435 hypothetical protein; 89.5 2.9 6.4E-05 38.7 9.6 55 432-486 65-120 (147)
62 cd04909 ACT_PDH-BS C-terminal 89.3 1.6 3.5E-05 34.2 6.7 60 438-498 3-64 (69)
63 PRK05092 PII uridylyl-transfer 89.2 1.8 3.9E-05 51.4 9.9 67 434-500 730-804 (931)
64 cd04883 ACT_AcuB C-terminal AC 88.8 3.2 7E-05 32.5 8.2 60 437-498 2-63 (72)
65 PRK04374 PII uridylyl-transfer 88.6 2.1 4.6E-05 50.5 9.8 68 434-501 688-760 (869)
66 cd04879 ACT_3PGDH-like ACT_3PG 88.4 2.9 6.2E-05 31.8 7.5 57 439-497 2-60 (71)
67 cd04877 ACT_TyrR N-terminal AC 88.1 3.7 8E-05 33.0 8.2 46 438-486 2-47 (74)
68 cd04880 ACT_AAAH-PDT-like ACT 88.0 3.5 7.7E-05 33.0 8.0 47 440-486 3-50 (75)
69 cd04878 ACT_AHAS N-terminal AC 87.7 3.4 7.4E-05 31.6 7.5 47 438-484 2-50 (72)
70 PF13185 GAF_2: GAF domain; PD 87.5 0.77 1.7E-05 40.1 4.2 64 161-228 69-137 (148)
71 cd04908 ACT_Bt0572_1 N-termina 87.1 4.4 9.6E-05 31.7 7.9 57 438-498 3-59 (66)
72 PRK08577 hypothetical protein; 86.2 6.9 0.00015 35.5 9.8 51 436-486 56-108 (136)
73 cd04881 ACT_HSDH-Hom ACT_HSDH_ 85.9 5.4 0.00012 31.0 7.9 47 438-484 2-50 (79)
74 cd04882 ACT_Bt0572_2 C-termina 85.4 3.3 7E-05 31.6 6.3 56 439-498 2-59 (65)
75 cd04884 ACT_CBS C-terminal ACT 85.1 7 0.00015 31.0 8.3 34 439-472 2-35 (72)
76 TIGR00655 PurU formyltetrahydr 84.2 6.2 0.00013 40.5 9.4 61 438-498 2-66 (280)
77 cd04903 ACT_LSD C-terminal ACT 84.0 6.4 0.00014 30.0 7.5 57 439-497 2-60 (71)
78 PRK06027 purU formyltetrahydro 84.0 7.1 0.00015 40.2 9.8 64 435-498 5-72 (286)
79 PRK07334 threonine dehydratase 83.4 6.9 0.00015 41.9 9.8 53 434-486 324-381 (403)
80 cd04905 ACT_CM-PDT C-terminal 83.0 10 0.00022 30.8 8.5 49 438-486 3-52 (80)
81 KOG4395 Transcription factor A 82.4 1.6 3.5E-05 43.9 4.1 52 356-407 176-230 (285)
82 cd04889 ACT_PDH-BS-like C-term 80.1 6.9 0.00015 29.3 6.2 44 439-482 1-45 (56)
83 PRK13011 formyltetrahydrofolat 79.8 12 0.00026 38.6 9.6 63 436-498 7-72 (286)
84 smart00065 GAF Domain present 78.8 14 0.0003 30.4 8.2 75 154-231 52-135 (149)
85 PRK11061 fused phosphoenolpyru 76.8 8 0.00017 45.0 8.1 76 153-231 67-147 (748)
86 TIGR01817 nifA Nif-specific re 75.8 2.8 6E-05 46.5 3.9 77 153-232 68-153 (534)
87 TIGR00119 acolac_sm acetolacta 74.3 13 0.00029 35.0 7.5 47 438-484 3-51 (157)
88 COG3830 ACT domain-containing 73.7 6.2 0.00013 33.9 4.6 66 436-501 3-70 (90)
89 cd04902 ACT_3PGDH-xct C-termin 73.0 13 0.00028 28.9 6.1 57 439-497 2-60 (73)
90 PRK11589 gcvR glycine cleavage 72.8 9.3 0.0002 37.1 6.2 62 435-496 7-68 (190)
91 PRK11589 gcvR glycine cleavage 71.7 41 0.00088 32.7 10.4 62 437-498 96-164 (190)
92 PRK11895 ilvH acetolactate syn 71.6 27 0.00059 33.0 8.9 47 438-484 4-52 (161)
93 cd04931 ACT_PAH ACT domain of 71.2 36 0.00077 29.0 8.8 52 436-487 14-66 (90)
94 cd04901 ACT_3PGDH C-terminal A 71.1 5.4 0.00012 30.9 3.5 56 440-497 3-58 (69)
95 PRK13010 purU formyltetrahydro 71.0 14 0.0003 38.2 7.4 64 435-498 8-76 (289)
96 PF13710 ACT_5: ACT domain; PD 70.4 19 0.0004 28.5 6.5 53 445-497 1-55 (63)
97 PRK11152 ilvM acetolactate syn 70.0 26 0.00057 29.1 7.4 59 438-497 5-65 (76)
98 KOG3898 Transcription factor N 70.0 2.9 6.2E-05 42.4 2.1 50 356-405 74-126 (254)
99 cd04885 ACT_ThrD-I Tandem C-te 70.0 27 0.00059 27.5 7.4 46 440-486 2-48 (68)
100 cd04904 ACT_AAAH ACT domain of 67.2 36 0.00078 27.4 7.7 48 439-486 3-51 (74)
101 PRK13562 acetolactate synthase 66.3 36 0.00078 28.9 7.6 48 438-485 4-51 (84)
102 COG2844 GlnD UTP:GlnB (protein 66.2 26 0.00056 41.1 8.8 61 427-487 675-736 (867)
103 cd04892 ACT_AK-like_2 ACT doma 65.8 35 0.00075 25.1 7.0 59 438-500 2-63 (65)
104 cd04922 ACT_AKi-HSDH-ThrA_2 AC 64.2 41 0.00088 25.5 7.2 60 438-501 3-65 (66)
105 PRK10872 relA (p)ppGpp synthet 62.3 43 0.00093 39.1 9.8 50 437-486 667-718 (743)
106 cd04906 ACT_ThrD-I_1 First of 62.2 55 0.0012 27.1 8.1 49 436-486 1-50 (85)
107 PRK06737 acetolactate synthase 62.0 60 0.0013 27.0 8.1 45 438-482 4-50 (76)
108 PRK06382 threonine dehydratase 61.8 32 0.0007 36.9 8.3 66 433-498 327-398 (406)
109 cd04916 ACT_AKiii-YclM-BS_2 AC 60.2 55 0.0012 24.8 7.3 53 445-501 13-65 (66)
110 TIGR00691 spoT_relA (p)ppGpp s 59.6 38 0.00082 39.2 8.8 51 436-486 610-661 (683)
111 cd04929 ACT_TPH ACT domain of 58.4 80 0.0017 25.8 8.2 46 441-486 5-51 (74)
112 PRK11092 bifunctional (p)ppGpp 58.3 41 0.00089 39.1 8.8 51 436-486 626-677 (702)
113 COG0788 PurU Formyltetrahydrof 54.4 38 0.00083 34.8 6.8 64 435-500 6-71 (287)
114 PRK08198 threonine dehydratase 54.0 81 0.0017 33.7 9.7 53 434-486 325-382 (404)
115 CHL00100 ilvH acetohydroxyacid 53.8 50 0.0011 31.7 7.2 61 438-498 4-66 (174)
116 TIGR01127 ilvA_1Cterm threonin 53.0 87 0.0019 33.1 9.7 53 434-486 303-360 (380)
117 cd04919 ACT_AK-Hom3_2 ACT doma 52.7 83 0.0018 23.9 7.2 52 445-500 13-64 (66)
118 cd04924 ACT_AK-Arch_2 ACT doma 51.2 88 0.0019 23.5 7.1 53 445-501 13-65 (66)
119 PF01590 GAF: GAF domain; Int 51.1 20 0.00043 31.2 3.8 60 155-216 53-131 (154)
120 COG4492 PheB ACT domain-contai 50.8 81 0.0018 29.3 7.6 53 434-486 70-123 (150)
121 PRK00227 glnD PII uridylyl-tra 49.3 80 0.0017 36.7 9.2 65 436-501 546-614 (693)
122 cd04890 ACT_AK-like_1 ACT doma 48.7 94 0.002 23.5 6.9 50 445-500 12-61 (62)
123 PF05088 Bac_GDH: Bacterial NA 47.4 85 0.0018 39.7 9.5 67 435-501 488-562 (1528)
124 cd04930 ACT_TH ACT domain of t 46.3 1.1E+02 0.0024 27.2 7.8 50 437-486 42-92 (115)
125 PRK08526 threonine dehydratase 44.6 1.3E+02 0.0028 32.5 9.4 53 434-486 324-381 (403)
126 PRK08178 acetolactate synthase 43.5 1.8E+02 0.0038 25.4 8.3 64 435-501 7-70 (96)
127 KOG3582 Mlx interactors and re 43.0 6.4 0.00014 44.8 -0.7 62 354-415 651-717 (856)
128 PF02344 Myc-LZ: Myc leucine z 42.7 26 0.00056 24.4 2.4 17 362-378 13-29 (32)
129 PRK05022 anaerobic nitric oxid 39.3 29 0.00063 38.4 3.6 78 153-232 65-153 (509)
130 cd04912 ACT_AKiii-LysC-EC-like 39.0 1.6E+02 0.0034 23.6 7.1 26 444-469 12-37 (75)
131 cd04932 ACT_AKiii-LysC-EC_1 AC 38.5 2.1E+02 0.0046 23.2 8.0 59 438-500 3-65 (75)
132 PRK15429 formate hydrogenlyase 38.3 1.1E+02 0.0024 35.1 8.2 73 159-231 256-337 (686)
133 PRK15385 magnesium transport p 37.2 2.2E+02 0.0047 28.6 9.0 65 436-501 142-210 (225)
134 cd04936 ACT_AKii-LysC-BS-like_ 36.4 1.7E+02 0.0036 21.6 6.5 50 445-500 12-61 (63)
135 cd04923 ACT_AK-LysC-DapG-like_ 35.9 1.7E+02 0.0037 21.5 6.5 50 445-500 12-61 (63)
136 PF02120 Flg_hook: Flagellar h 35.7 66 0.0014 26.1 4.4 49 425-473 26-80 (85)
137 cd04868 ACT_AK-like ACT domain 35.5 1.5E+02 0.0033 21.0 6.0 36 446-483 13-48 (60)
138 cd04921 ACT_AKi-HSDH-ThrA-like 34.7 1.8E+02 0.0039 23.0 6.8 53 444-500 12-64 (80)
139 PF09849 DUF2076: Uncharacteri 33.7 1E+02 0.0022 31.3 6.2 18 399-416 57-74 (247)
140 COG0317 SpoT Guanosine polypho 33.3 1.5E+02 0.0032 34.5 8.1 51 436-486 627-678 (701)
141 PF07009 DUF1312: Protein of u 33.1 43 0.00094 29.5 3.1 44 159-204 57-100 (113)
142 KOG4447 Transcription factor T 32.6 32 0.0007 32.4 2.2 24 360-383 28-51 (173)
143 PRK00227 glnD PII uridylyl-tra 32.5 62 0.0013 37.6 4.9 59 437-500 632-690 (693)
144 COG3978 Acetolactate synthase 31.6 2.6E+02 0.0056 23.8 7.1 59 439-498 6-66 (86)
145 cd04913 ACT_AKii-LysC-BS-like_ 29.9 2.4E+02 0.0053 21.2 6.8 41 443-483 9-50 (75)
146 cd04937 ACT_AKi-DapG-BS_2 ACT 28.8 2.7E+02 0.0058 21.4 6.9 23 445-467 13-35 (64)
147 COG4747 ACT domain-containing 26.3 1.4E+02 0.0031 27.2 5.1 45 438-482 5-49 (142)
148 PRK11899 prephenate dehydratas 25.2 3.6E+02 0.0079 27.7 8.6 62 436-497 194-257 (279)
149 cd04933 ACT_AK1-AT_1 ACT domai 23.6 4.2E+02 0.0091 21.8 7.2 45 438-486 3-50 (78)
150 cd04918 ACT_AK1-AT_2 ACT domai 23.3 2.4E+02 0.0053 21.8 5.5 51 446-500 13-63 (65)
151 PF07485 DUF1529: Domain of Un 22.9 2.6E+02 0.0056 25.4 6.2 52 448-501 68-121 (123)
152 KOG3582 Mlx interactors and re 22.3 30 0.00064 39.8 0.0 55 356-413 789-848 (856)
153 PF13492 GAF_3: GAF domain; PD 22.1 93 0.002 26.0 3.1 62 154-227 50-116 (129)
154 cd04915 ACT_AK-Ectoine_2 ACT d 21.2 3.1E+02 0.0067 21.4 5.7 51 446-500 14-64 (66)
155 TIGR02079 THD1 threonine dehyd 21.0 6.2E+02 0.013 27.3 9.8 53 434-486 323-377 (409)
No 1
>PF14215 bHLH-MYC_N: bHLH-MYC and R2R3-MYB transcription factors N-terminal
Probab=100.00 E-value=4.1e-54 Score=402.24 Aligned_cols=163 Identities=44% Similarity=0.783 Sum_probs=150.6
Q ss_pred HHHHHHhhccCCCceEEEeeeecCCCCCCeeEEeCCcccCCCCCCCCCCCccCCcccchhHHHHHHHHHHHHHhHhhhhC
Q 010728 48 VHQRLCQVVEGSNWNYAIYWHASNLKSGGSALIWGDGHCRDPKDGAVGGGKSSGVNKVDEVERKEEVKKRVLQKLHACFG 127 (502)
Q Consensus 48 Lq~~L~~lv~~~~W~YAIFWq~s~~~~g~~vL~WgDGy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rk~~l~~L~~l~~ 127 (502)
|||+||+||++.+|+||||||++++++ +|+||||||+++++++.. . +..+++|+++|++||++++
T Consensus 1 Lq~~Lr~lv~~~~W~YaVFWk~~~~~~---~L~W~DG~~~g~~~~~~~---------~---~~~~~~~~~~l~~l~~~~~ 65 (163)
T PF14215_consen 1 LQQRLRSLVENSQWTYAVFWKLSPDNS---VLVWGDGYCNGPKETRKN---------G---EEEQEQRSKVLRELHSSFS 65 (163)
T ss_pred ChHHHHHHhCCCCCcEEEEeEEcCCCC---eeeEcceeecCCcccccc---------h---hhccchhhhHHHHHhhhcc
Confidence 799999999999999999999999983 999999999988765322 1 1445569999999999987
Q ss_pred CCccccccCCCCcceeEEEEEeeeeeeCCCCCCCcceeecCCCceEeeCCCCCCCCcchhhhhhhhcCCceEEEeecCCc
Q 010728 128 GLENYASRFDGVSGVEMFYLTSMYFNFRCDSAYGPGHAYKSGRSIWTSGIVSCSDHYESRSFLAMSAGFQTVVFVPAKSG 207 (502)
Q Consensus 128 ~~~~~al~~~~~td~Ewfyl~sm~~sF~~G~~GlpG~a~~sg~~~Wl~~~~~~~~~~~~R~~lA~saGIqTvvcIPv~~G 207 (502)
++++.+++++|+||||++||+|+| | +|+|||||++|+|+||++++.++.+.|+|+++|+++|||||||||+++|
T Consensus 66 ---~~~~~~~~v~~~e~f~~~s~~~sf--g-~G~~G~a~~sg~~~Wi~~~~~~~~~~~~r~~~aq~~~~~Tiv~IPv~~G 139 (163)
T PF14215_consen 66 ---SYALSPEEVTDTEWFYLVSMSYSF--G-EGIPGRAAASGQHIWISGANELDSSYCERAWLAQFAGIQTIVCIPVPNG 139 (163)
T ss_pred ---ccccccchhHHHHHHhhceeeEEe--c-CCccEEEeecCccEEEeCCCccccccchhhhhhcccccceEEEEEecCC
Confidence 456788999999999999999999 9 9999999999999999999999999999999999999999999999999
Q ss_pred eeeecccccccCCHHHHHHHHHHh
Q 010728 208 VVELGSVKLIPEEQNVVEMVKTVF 231 (502)
Q Consensus 208 VvELGSt~~I~Ed~~lv~~vk~~F 231 (502)
|||||||++|+||+++|++||++|
T Consensus 140 VvELGSt~~I~Ed~~~v~~vk~~F 163 (163)
T PF14215_consen 140 VVELGSTEKIPEDSNLVQRVKSLF 163 (163)
T ss_pred EEEeeeeeeeccCHHHHHHHHhhC
Confidence 999999999999999999999998
No 2
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=99.27 E-value=7e-12 Score=97.51 Aligned_cols=52 Identities=38% Similarity=0.637 Sum_probs=49.0
Q ss_pred CccccHHHHHHHHHHHHHHHHHhhcCCCC---CCCChhcHHHHHHHHHHHHHHHH
Q 010728 355 PLNHVEAERQRREKLNQRFYALRAVVPNI---SKMDKASLLGDAITYITDLQMKI 406 (502)
Q Consensus 355 ~~~H~~~ER~RR~kln~~f~~LrslvP~~---~K~dKasiL~~aI~YIk~Lq~~v 406 (502)
+..|+.+||+||++||..|..|+++||.. .|+||++||..||+||+.|+.++
T Consensus 5 r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 5 REAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 35899999999999999999999999977 89999999999999999999876
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.26 E-value=9.3e-12 Score=94.83 Aligned_cols=49 Identities=41% Similarity=0.638 Sum_probs=45.7
Q ss_pred cHHHHHHHHHHHHHHHHHhhcCCC---CCCCChhcHHHHHHHHHHHHHHHHH
Q 010728 359 VEAERQRREKLNQRFYALRAVVPN---ISKMDKASLLGDAITYITDLQMKIR 407 (502)
Q Consensus 359 ~~~ER~RR~kln~~f~~LrslvP~---~~K~dKasiL~~aI~YIk~Lq~~v~ 407 (502)
+.+||+||++||+.|..|+++||. ..|+||++||..||+||++|+.+++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 368999999999999999999994 6799999999999999999999876
No 4
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=99.22 E-value=1.3e-11 Score=95.08 Aligned_cols=48 Identities=46% Similarity=0.737 Sum_probs=45.4
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCC-----CCCChhcHHHHHHHHHHHHH
Q 010728 356 LNHVEAERQRREKLNQRFYALRAVVPNI-----SKMDKASLLGDAITYITDLQ 403 (502)
Q Consensus 356 ~~H~~~ER~RR~kln~~f~~LrslvP~~-----~K~dKasiL~~aI~YIk~Lq 403 (502)
..|+..||+||++||+.|..|+.+||.. .|++|++||..||+||++||
T Consensus 3 ~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 3 QKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 4799999999999999999999999965 78999999999999999997
No 5
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=98.65 E-value=3.2e-08 Score=104.24 Aligned_cols=53 Identities=36% Similarity=0.583 Sum_probs=48.5
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCC----CCCChhcHHHHHHHHHHHHHHHHHH
Q 010728 356 LNHVEAERQRREKLNQRFYALRAVVPNI----SKMDKASLLGDAITYITDLQMKIRV 408 (502)
Q Consensus 356 ~~H~~~ER~RR~kln~~f~~LrslvP~~----~K~dKasiL~~aI~YIk~Lq~~v~~ 408 (502)
-+|+++|||||++||+++..|..|||.+ .|..|..||..+.+||++||+..++
T Consensus 235 d~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~ 291 (411)
T KOG1318|consen 235 DNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQR 291 (411)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHH
Confidence 5899999999999999999999999976 4777999999999999999987663
No 6
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.35 E-value=4.7e-07 Score=85.58 Aligned_cols=62 Identities=29% Similarity=0.457 Sum_probs=54.2
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCC-------CCCChhcHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 010728 356 LNHVEAERQRREKLNQRFYALRAVVPNI-------SKMDKASLLGDAITYITDLQMKIRVLETEKDMSN 417 (502)
Q Consensus 356 ~~H~~~ER~RR~kln~~f~~LrslvP~~-------~K~dKasiL~~aI~YIk~Lq~~v~~Le~~~~~l~ 417 (502)
..|.-+||+||+-||..|..|..|||.+ .|..||-||..+|+||..|+.++..-+.+...|.
T Consensus 64 ~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~ 132 (229)
T KOG1319|consen 64 RAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLR 132 (229)
T ss_pred HHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4799999999999999999999999953 3778999999999999999988887777665554
No 7
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.13 E-value=8.4e-06 Score=80.68 Aligned_cols=68 Identities=22% Similarity=0.319 Sum_probs=55.7
Q ss_pred CCCCCCccccHHHHHHHHHHHHHHHHHhhcCCCC--CCCC-hhcHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 010728 350 NGREEPLNHVEAERQRREKLNQRFYALRAVVPNI--SKMD-KASLLGDAITYITDLQMKIRVLETEKDMSN 417 (502)
Q Consensus 350 ~~re~~~~H~~~ER~RR~kln~~f~~LrslvP~~--~K~d-KasiL~~aI~YIk~Lq~~v~~Le~~~~~l~ 417 (502)
++...+..|+.-||+||..|++.|..|+.+||+. .+.. .++||..|++||+.|+.+....+..++.+.
T Consensus 55 ~~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e~l~ 125 (232)
T KOG2483|consen 55 SAASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIEDLS 125 (232)
T ss_pred CCCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHHHHH
Confidence 3344567999999999999999999999999964 3333 699999999999999988777776665554
No 8
>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=98.08 E-value=2.8e-05 Score=64.27 Aligned_cols=64 Identities=22% Similarity=0.335 Sum_probs=56.5
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCCh-------HHHHHHHHHHhc
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGAS-------EQLKEKLLAALS 501 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~-------~~l~e~L~~aLs 501 (502)
+|+|.|+.++|+|.+|..+|-+++++|.+|.+++.++.+..+|.|+-.+|.. +.+++.|.++|+
T Consensus 3 vveV~~~DRpGLL~~i~~~l~~~~l~I~~A~I~T~gera~D~FyV~d~~g~kl~~~~~~~~l~~~L~~al~ 73 (75)
T cd04897 3 VVTVQCRDRPKLLFDVVCTLTDMDYVVFHATIDTDGDDAHQEYYIRHKDGRTLSTEGERQRVIKCLEAAIE 73 (75)
T ss_pred EEEEEeCCcCcHHHHHHHHHHhCCeEEEEEEEeecCceEEEEEEEEcCCCCccCCHHHHHHHHHHHHHHHh
Confidence 6899999999999999999999999999999999999999999998877621 366777777775
No 9
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.02 E-value=3.7e-06 Score=84.30 Aligned_cols=54 Identities=24% Similarity=0.418 Sum_probs=47.9
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCC--------CCCCChhcHHHHHHHHHHHHHHHHHHH
Q 010728 356 LNHVEAERQRREKLNQRFYALRAVVPN--------ISKMDKASLLGDAITYITDLQMKIRVL 409 (502)
Q Consensus 356 ~~H~~~ER~RR~kln~~f~~LrslvP~--------~~K~dKasiL~~aI~YIk~Lq~~v~~L 409 (502)
.+|-+.|||||.|||+.+..|+.|||. .+|++||-||.-|++|++.|+.....-
T Consensus 34 ~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~ 95 (250)
T KOG4304|consen 34 VRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAA 95 (250)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccccc
Confidence 578899999999999999999999992 378999999999999999998765543
No 10
>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.95 E-value=7.7e-05 Score=61.18 Aligned_cols=64 Identities=13% Similarity=0.250 Sum_probs=56.4
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC---hHHHHHHHHHHhc
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA---SEQLKEKLLAALS 501 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~---~~~l~e~L~~aLs 501 (502)
+|+|.+++++|+|.+|..+|.++||+|+.|.+++.++.+..+|-|.-..|. .....+.|+++|.
T Consensus 3 viev~a~DRpGLL~~i~~~l~~~gl~I~~AkIsT~Gerv~DvFyV~d~~g~kl~d~~~~~~l~~~L~ 69 (72)
T cd04895 3 LVKVDSARKPGILLEAVQVLTDLDLCITKAYISSDGGWFMDVFHVTDQLGNKLTDDSLIAYIEKSLG 69 (72)
T ss_pred EEEEEECCcCCHHHHHHHHHHHCCcEEEEEEEeecCCeEEEEEEEECCCCCCCCCHHHHHHHHHHhc
Confidence 689999999999999999999999999999999999999999999877653 3466677777764
No 11
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=97.94 E-value=7.8e-06 Score=92.79 Aligned_cols=50 Identities=28% Similarity=0.400 Sum_probs=46.4
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCC----CCCChhcHHHHHHHHHHHHHHH
Q 010728 356 LNHVEAERQRREKLNQRFYALRAVVPNI----SKMDKASLLGDAITYITDLQMK 405 (502)
Q Consensus 356 ~~H~~~ER~RR~kln~~f~~LrslvP~~----~K~dKasiL~~aI~YIk~Lq~~ 405 (502)
.+|+.+|||||+|+|..+..|.+|||.+ -|+||..||..||.+|+.+++.
T Consensus 22 e~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 22 ENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 3899999999999999999999999965 5999999999999999998874
No 12
>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.75 E-value=0.0002 Score=59.22 Aligned_cols=64 Identities=13% Similarity=0.230 Sum_probs=53.1
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEE--ecCCEEEEEEEEEeCCC---C---hHHHHHHHHHHhc
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVS--TTEDKVIHTFSIQTQSG---A---SEQLKEKLLAALS 501 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s--~~~~~v~~~~~vk~~~g---~---~~~l~e~L~~aLs 501 (502)
+|+|.|++++|+|.+|..+|..++++|+.|.++ +.++++..+|.+...++ + .+.+++.|.++|.
T Consensus 2 vlev~a~DRpGLL~~i~~~l~~~~l~i~~AkI~~~T~Gerv~D~Fyv~~~g~kl~d~~~~~~L~~~L~~~l~ 73 (75)
T cd04896 2 LLQIRCVDQKGLLYDILRTSKDCNIQISYGRFSSKVKGYREVDLFIVQSDGKKIMDPKKQAALCARLREEMV 73 (75)
T ss_pred EEEEEeCCcccHHHHHHHHHHHCCeEEEEEEEecCcccCEEEEEEEEeCCCCccCCHHHHHHHHHHHHHHhc
Confidence 589999999999999999999999999999999 99999999999944332 1 1356666666653
No 13
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.70 E-value=0.00031 Score=57.77 Aligned_cols=51 Identities=18% Similarity=0.308 Sum_probs=46.5
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe-cCCEEEEEEEEEeCCC
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST-TEDKVIHTFSIQTQSG 487 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~-~~~~v~~~~~vk~~~g 487 (502)
++++|.|+.++|+|.++..+|..+|++|++|.+++ .++.++.+|.|.-.+|
T Consensus 1 ~~~ei~~~Dr~gLfa~i~~~l~~~~l~I~~A~I~Tt~~~~v~D~F~V~d~~~ 52 (76)
T cd04927 1 FLLKLFCSDRKGLLHDVTEVLYELELTIERVKVSTTPDGRVLDLFFITDARE 52 (76)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHCCCeEEEEEEEECCCCEEEEEEEEeCCCC
Confidence 46899999999999999999999999999999996 8899999999975554
No 14
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.49 E-value=0.0002 Score=70.86 Aligned_cols=62 Identities=27% Similarity=0.357 Sum_probs=53.4
Q ss_pred CccccHHHHHHHHHHHHHHHHH-hhcCCCC-CCCChhcHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010728 355 PLNHVEAERQRREKLNQRFYAL-RAVVPNI-SKMDKASLLGDAITYITDLQMKIRVLETEKDMS 416 (502)
Q Consensus 355 ~~~H~~~ER~RR~kln~~f~~L-rslvP~~-~K~dKasiL~~aI~YIk~Lq~~v~~Le~~~~~l 416 (502)
++.-.+.||||=.|+|+.|.+| |.-.+|. .+.-|+-||..||+||..||.-++++......+
T Consensus 119 RKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~ 182 (284)
T KOG3960|consen 119 RKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEKGL 182 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccchhh
Confidence 3456689999999999999999 6677775 678999999999999999999999987766544
No 15
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.47 E-value=9e-05 Score=84.64 Aligned_cols=65 Identities=32% Similarity=0.494 Sum_probs=57.0
Q ss_pred CCCCCccccHHHHHHHHHHHHHHHHHhhcCCCC-CCCChhcHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010728 351 GREEPLNHVEAERQRREKLNQRFYALRAVVPNI-SKMDKASLLGDAITYITDLQMKIRVLETEKDM 415 (502)
Q Consensus 351 ~re~~~~H~~~ER~RR~kln~~f~~LrslvP~~-~K~dKasiL~~aI~YIk~Lq~~v~~Le~~~~~ 415 (502)
|.+.+.+|+++|||-|--||+++..|+.+||.. .|..|.++|..||+||++|+...+.+..+...
T Consensus 273 G~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~ 338 (953)
T KOG2588|consen 273 GGEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENAS 338 (953)
T ss_pred CCcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhh
Confidence 456778999999999999999999999999975 89999999999999999999877766655443
No 16
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.46 E-value=0.0012 Score=53.51 Aligned_cols=63 Identities=14% Similarity=0.205 Sum_probs=50.6
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-CCEEEEEEEEEeCCCC---hHHHHHHHHHHh
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-EDKVIHTFSIQTQSGA---SEQLKEKLLAAL 500 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-~~~v~~~~~vk~~~g~---~~~l~e~L~~aL 500 (502)
.|.|.|+.++|+|.++..+|..+|++|++|.+.+. ++.++.+|.|.-+.|. .+...++|++.|
T Consensus 3 ~i~v~~~Dr~gLl~~i~~~l~~~~l~I~~A~i~T~~~~~v~D~F~v~~~~~~~~~~~~~~~~l~~~L 69 (73)
T cd04900 3 EVFIYTPDRPGLFARIAGALDQLGLNILDARIFTTRDGYALDTFVVLDPDGEPIGERERLARIREAL 69 (73)
T ss_pred EEEEEecCCCCHHHHHHHHHHHCCCCeEEeEEEEeCCCeEEEEEEEECCCCCCCChHHHHHHHHHHH
Confidence 57899999999999999999999999999999877 6899999999765542 233444555544
No 17
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.33 E-value=0.00016 Score=73.16 Aligned_cols=51 Identities=33% Similarity=0.505 Sum_probs=45.6
Q ss_pred cHHHHHHHHHHHHHHHHHhhcCCC--CCCCChhcHHHHHHHHHHHHHHHHHHH
Q 010728 359 VEAERQRREKLNQRFYALRAVVPN--ISKMDKASLLGDAITYITDLQMKIRVL 409 (502)
Q Consensus 359 ~~~ER~RR~kln~~f~~LrslvP~--~~K~dKasiL~~aI~YIk~Lq~~v~~L 409 (502)
+--||||=.-||..|..||+|+|. ..|..||.||..+.+||.+|+...-+|
T Consensus 65 NsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~l 117 (373)
T KOG0561|consen 65 NSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTEL 117 (373)
T ss_pred cchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhccccc
Confidence 345999999999999999999995 689999999999999999998866555
No 18
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.22 E-value=0.0029 Score=51.61 Aligned_cols=64 Identities=13% Similarity=0.216 Sum_probs=52.2
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCC-CC---h----HHHHHHHHHHhc
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQS-GA---S----EQLKEKLLAALS 501 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~-g~---~----~~l~e~L~~aLs 501 (502)
+|+|.++.++|+|.+|..+|..+|+.|+.|.+++.++.++.+|.|.-+. |. . +.+++.|.++|+
T Consensus 2 ~~~v~~~Dr~gLl~~i~~~l~~~~lnI~~A~i~t~~~~~~d~f~V~d~~~~~~~~~~~~~~~i~~~L~~~l~ 73 (74)
T cd04925 2 AIELTGTDRPGLLSEVFAVLADLHCNVVEARAWTHNGRLACVIYVRDEETGAPIDDPIRLASIEDRLDNVLR 73 (74)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCCcEEEEEEEEECCEEEEEEEEEcCcCCCCCCCHHHHHHHHHHHHHHhc
Confidence 5899999999999999999999999999999999999999999996543 31 2 245555555553
No 19
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=97.19 E-value=0.0031 Score=51.23 Aligned_cols=63 Identities=10% Similarity=0.131 Sum_probs=54.7
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-CCEEEEEEEEEeCCC-ChHHHHHHHHHHh
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-EDKVIHTFSIQTQSG-ASEQLKEKLLAAL 500 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-~~~v~~~~~vk~~~g-~~~~l~e~L~~aL 500 (502)
.|-|.|+.++++|+++..+|..+||.|+.|++.+. ++.++.+|.|.-.+| ++..+.++|+++|
T Consensus 3 eI~V~~~Dr~gLFa~iag~L~~~~LnI~~A~i~tt~dG~~LDtF~V~d~~~~~~~~~~~~~~~~~ 67 (68)
T cd04928 3 EITFAAGDKPKLLSQLSSLLGDLGLNIAEAHAFSTDDGLALDIFVVTGWKRGETAALGHALQKEI 67 (68)
T ss_pred EEEEEECCCcchHHHHHHHHHHCCCceEEEEEEEcCCCeEEEEEEEecCCccchHHHHHHHHHhh
Confidence 36788999999999999999999999999999864 678899999987665 5568999999887
No 20
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.00 E-value=0.0019 Score=54.15 Aligned_cols=51 Identities=22% Similarity=0.369 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhhcCCC------CCCCChhcHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 010728 367 EKLNQRFYALRAVVPN------ISKMDKASLLGDAITYITDLQMKIRVLETEKDMSN 417 (502)
Q Consensus 367 ~kln~~f~~LrslvP~------~~K~dKasiL~~aI~YIk~Lq~~v~~Le~~~~~l~ 417 (502)
+.|++....|++|+|. ..|..-+-+|.+|..||+.|+++|..|.++..++-
T Consensus 20 dqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL 76 (93)
T PLN03217 20 DQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELL 76 (93)
T ss_pred HHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6799999999999994 24555566799999999999999999999887664
No 21
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=96.96 E-value=0.0086 Score=47.23 Aligned_cols=50 Identities=12% Similarity=0.249 Sum_probs=45.8
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCC
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSG 487 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g 487 (502)
.|.|.++.++|++.+|+.+|.++++.|.++++.+.++.++.+|.+.-..|
T Consensus 2 ~l~v~~~d~~gll~~i~~~l~~~~~~I~~~~~~~~~~~~~~~f~i~~~~~ 51 (70)
T cd04899 2 VLELTALDRPGLLADVTRVLAELGLNIHSAKIATLGERAEDVFYVTDADG 51 (70)
T ss_pred EEEEEEcCCccHHHHHHHHHHHCCCeEEEEEEEecCCEEEEEEEEECCCC
Confidence 58899999999999999999999999999999998889999999987654
No 22
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=96.90 E-value=0.00092 Score=66.12 Aligned_cols=60 Identities=30% Similarity=0.367 Sum_probs=51.8
Q ss_pred CCccccHHHHHHHHHHHHHHHHHhhcCCC----CCCCChhcHHHHHHHHHHHHHHHHHHHHHHH
Q 010728 354 EPLNHVEAERQRREKLNQRFYALRAVVPN----ISKMDKASLLGDAITYITDLQMKIRVLETEK 413 (502)
Q Consensus 354 ~~~~H~~~ER~RR~kln~~f~~LrslvP~----~~K~dKasiL~~aI~YIk~Lq~~v~~Le~~~ 413 (502)
.+..++..||+|=+.+|..|..||.+||. ..|..|..+|.-||.||+.|+.-++.-+...
T Consensus 109 ~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 109 QRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred hhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 44567778999999999999999999994 5688999999999999999998877666443
No 23
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=96.69 E-value=0.02 Score=46.32 Aligned_cols=64 Identities=16% Similarity=0.258 Sum_probs=50.0
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC--hHHHHHHHHHHh
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA--SEQLKEKLLAAL 500 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~--~~~l~e~L~~aL 500 (502)
..|.|.++.+.|+|.+|..+|.++++.|+++.+.+.++.++.+|.+.-.++. .....++|+++|
T Consensus 2 tri~V~~~D~~Gll~~i~~~l~~~~lnI~sa~i~t~~~~~~d~f~v~~~~~~~~~~~~~~~l~~~l 67 (72)
T cd04926 2 VRLELRTEDRVGLLSDVTRVFRENGLTVTRAEISTQGDMAVNVFYVTDANGNPVDPKTIEAVRQEI 67 (72)
T ss_pred eEEEEEECCccCHHHHHHHHHHHCCcEEEEEEEecCCCeEEEEEEEECCCCCcCCHHHHHHHHHHh
Confidence 3577899999999999999999999999999999888888888888644432 123445565554
No 24
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=96.28 E-value=0.027 Score=46.02 Aligned_cols=63 Identities=17% Similarity=0.196 Sum_probs=49.6
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHH
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLA 498 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~ 498 (502)
.++|.+.+++++|++..|..+|.++|..+..++.++.++.+...+.+..+....+.++..|.+
T Consensus 2 ~~vItv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~~~~~~f~~~~~v~~~~~~~~~l~~~L~~ 64 (76)
T PF13740_consen 2 QLVITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQAVLGGRFTLIMLVSIPEDSLERLESALEE 64 (76)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCTT-EEEEEEEEEETTEEEEEEEEEESHHHHHHHHHHHHH
T ss_pred EEEEEEEecCCCcHHHHHHHHHHHCCCcEEEEEEEEEcCeEEEEEEEEeCcccHHHHHHHHHH
Confidence 468999999999999999999999999999999999999988888888874333344444443
No 25
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=96.16 E-value=0.043 Score=42.75 Aligned_cols=49 Identities=16% Similarity=0.354 Sum_probs=43.3
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCC
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQS 486 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~ 486 (502)
.|.|.|+.++|++.+|+.+|.++++.+.++.+.+.++.....|.+..++
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~~~v~~~~ 50 (70)
T cd04873 2 VVEVYAPDRPGLLADITRVLADLGLNIHDARISTTGERALDVFYVTDSD 50 (70)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEECCC
Confidence 4788999999999999999999999999999998877777788877655
No 26
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=96.08 E-value=0.035 Score=42.77 Aligned_cols=62 Identities=26% Similarity=0.231 Sum_probs=46.3
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCC-EEEEEEEEEeCCCChHHHHHHHHHH
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTED-KVIHTFSIQTQSGASEQLKEKLLAA 499 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~-~v~~~~~vk~~~g~~~~l~e~L~~a 499 (502)
.|.|.|++++|.|.++...|.++++.|.++.+...++ .....+.........+.+.++|+++
T Consensus 2 ~v~v~~~drpG~l~~v~~~la~~~inI~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 64 (66)
T PF01842_consen 2 RVRVIVPDRPGILADVTEILADHGINIDSISQSSDKDGVGIVFIVIVVDEEDLEKLLEELEAL 64 (66)
T ss_dssp EEEEEEETSTTHHHHHHHHHHHTTEEEEEEEEEEESSTTEEEEEEEEEEGHGHHHHHHHHHHH
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCHHHeEEEecCCCceEEEEEEECCCCCHHHHHHHHHcc
Confidence 5789999999999999999999999999999998876 2122333333333455777777654
No 27
>PRK05007 PII uridylyl-transferase; Provisional
Probab=96.04 E-value=0.024 Score=66.59 Aligned_cols=69 Identities=17% Similarity=0.264 Sum_probs=57.9
Q ss_pred cCCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC------hHHHHHHHHHHhc
Q 010728 433 RHEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA------SEQLKEKLLAALS 501 (502)
Q Consensus 433 ~~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~------~~~l~e~L~~aLs 501 (502)
.+.-..|+|.+.+++|+|.+|..+|.++|++|++|.++|.++.+..+|.|.-..|. .+.+++.|.++|.
T Consensus 805 s~~~TvlEV~a~DRpGLL~~I~~~l~~~~l~I~~AkI~T~gera~DvFyV~~~~g~~l~~~~~~~l~~~L~~~l~ 879 (884)
T PRK05007 805 TDRRSYMELIALDQPGLLARVGKIFADLGISLHGARITTIGERVEDLFILATADRRALNEELQQELRQRLTEALN 879 (884)
T ss_pred CCCeEEEEEEeCCchHHHHHHHHHHHHCCcEEEEEEEeccCceEEEEEEEEcCCCCcCCHHHHHHHHHHHHHHHh
Confidence 44567899999999999999999999999999999999999999999999766652 1355666666553
No 28
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=95.94 E-value=0.065 Score=43.93 Aligned_cols=62 Identities=13% Similarity=0.079 Sum_probs=52.6
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHH
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLA 498 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~ 498 (502)
+.|.+.|++++|+..+|-..|.++|..+..++....++.++..+.+..+..+.+.+++.+.+
T Consensus 2 ~iltv~g~Dr~GiVa~vs~~la~~g~nI~d~~q~~~~~~F~m~~~~~~~~~~~~~l~~~l~~ 63 (77)
T cd04893 2 LVISALGTDRPGILNELTRAVSESGCNILDSRMAILGTEFALTMLVEGSWDAIAKLEAALPG 63 (77)
T ss_pred EEEEEEeCCCChHHHHHHHHHHHcCCCEEEceeeEEcCEEEEEEEEEeccccHHHHHHHHHH
Confidence 56889999999999999999999999999999999989888888888765445566665554
No 29
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=95.69 E-value=0.037 Score=64.77 Aligned_cols=69 Identities=23% Similarity=0.328 Sum_probs=57.6
Q ss_pred cCCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC------hHHHHHHHHHHhc
Q 010728 433 RHEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA------SEQLKEKLLAALS 501 (502)
Q Consensus 433 ~~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~------~~~l~e~L~~aLs 501 (502)
.+.-..|+|.+++++|+|.+|..+|.++|++|+.|.++|.++++..+|.|.-..|. .+.+++.|..+||
T Consensus 780 s~~~T~iev~a~DrpGLL~~I~~~l~~~~l~i~~AkI~T~gerv~D~Fyv~~~~g~~l~~~~~~~l~~~L~~~l~ 854 (854)
T PRK01759 780 KQEQTEMELFALDRAGLLAQVSQVFSELNLNLLNAKITTIGEKAEDFFILTNQQGQALDEEERKALKSRLLSNLS 854 (854)
T ss_pred CCCeEEEEEEeCCchHHHHHHHHHHHHCCCEEEEEEEcccCceEEEEEEEECCCCCcCChHHHHHHHHHHHHHhC
Confidence 34457899999999999999999999999999999999999999999999766552 2355666666554
No 30
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=95.51 E-value=0.19 Score=41.00 Aligned_cols=51 Identities=12% Similarity=0.194 Sum_probs=44.0
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCC
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQS 486 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~ 486 (502)
.+.|+|.+.+++|+|.+|..++.+.++.+.++++... ++.+...|.+++++
T Consensus 6 ~~~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d 58 (80)
T PF13291_consen 6 PVRLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKD 58 (80)
T ss_dssp EEEEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESS
T ss_pred EEEEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECC
Confidence 4678999999999999999999999999999999984 57888899999976
No 31
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=95.25 E-value=0.086 Score=44.07 Aligned_cols=62 Identities=15% Similarity=0.092 Sum_probs=53.2
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCC--CChHHHHHHHHH
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQS--GASEQLKEKLLA 498 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~--g~~~~l~e~L~~ 498 (502)
..|.+.|++++|++.+|.+.|-++|+.+.+++..+.++.+...+.+..+. .+.+.+++.|.+
T Consensus 2 ~vl~i~g~D~pGiva~vt~~la~~g~nI~~~~~~~~~~~f~~~~~v~~~~~~~~~~~L~~~l~~ 65 (88)
T cd04872 2 AVITVVGKDRVGIVAGVSTKLAELNVNILDISQTIMDGYFTMIMIVDISESNLDFAELQEELEE 65 (88)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHcCCCEEechhHhhCCccEEEEEEEeCCCCCCHHHHHHHHHH
Confidence 57899999999999999999999999999999999888888888888775 245677766665
No 32
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=95.21 E-value=0.17 Score=41.06 Aligned_cols=60 Identities=17% Similarity=0.148 Sum_probs=50.0
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC------CEEEEEEEEEeCCC-ChHHHHHHHHH
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE------DKVIHTFSIQTQSG-ASEQLKEKLLA 498 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~------~~v~~~~~vk~~~g-~~~~l~e~L~~ 498 (502)
|.|.|+.++|++.+|-+.|.++|+.+.+.+..+.+ +.+...+.+..+.+ +...+++.|.+
T Consensus 2 l~v~g~D~~Giv~~it~~l~~~~~nI~~~~~~~~~~~~~~~~~~~~~~~v~~p~~~~~~~l~~~l~~ 68 (81)
T cd04869 2 VEVVGNDRPGIVHEVTQFLAQRNINIEDLSTETYSAPMSGTPLFKAQATLALPAGTDLDALREELEE 68 (81)
T ss_pred EEEEeCCCCCHHHHHHHHHHHcCCCeEEeEeeeecCCCCCcceEEEEEEEecCCCCCHHHHHHHHHH
Confidence 67999999999999999999999999999998876 67777788887763 45566766654
No 33
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=95.04 E-value=0.11 Score=61.21 Aligned_cols=68 Identities=16% Similarity=0.292 Sum_probs=57.4
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC---h----HHHHHHHHHHhc
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA---S----EQLKEKLLAALS 501 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~---~----~~l~e~L~~aLs 501 (502)
.+-..|.|.++.++|+|.+|..+|..+|++|+.|.+++.++.++.+|.|.-.+|. . +.+++.|..+|+
T Consensus 812 ~~~T~i~V~a~DrpGLLa~I~~~L~~~~l~I~~AkI~T~g~~v~D~F~V~d~~g~~l~~~~~~~~l~~~L~~~L~ 886 (895)
T PRK00275 812 RPVTVLEIIAPDRPGLLARIGRIFLEFDLSLQNAKIATLGERVEDVFFITDADNQPLSDPQLCSRLQDAICEQLD 886 (895)
T ss_pred CCeEEEEEEECCCCCHHHHHHHHHHHCCCEEEEeEEEecCCEEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHh
Confidence 4457799999999999999999999999999999999999999999999876542 1 246667766664
No 34
>PRK00194 hypothetical protein; Validated
Probab=94.95 E-value=0.13 Score=43.04 Aligned_cols=63 Identities=13% Similarity=0.114 Sum_probs=52.4
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCC--CChHHHHHHHHH
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQS--GASEQLKEKLLA 498 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~--g~~~~l~e~L~~ 498 (502)
.+.|.|.|++++|++.+|.+.|.++|+.|.+.+..+.++.+...+.+..+. .+.+.+++.|.+
T Consensus 3 ~~~ltv~g~DrpGiva~vt~~la~~g~nI~~~~~~~~~~~~~~~~~v~~~~~~~~~~~l~~~l~~ 67 (90)
T PRK00194 3 KAIITVIGKDKVGIIAGVSTVLAELNVNILDISQTIMDGYFTMIMLVDISESKKDFAELKEELEE 67 (90)
T ss_pred eEEEEEEcCCCCCHHHHHHHHHHHcCCCEEehhhHhhCCeeEEEEEEEecCCCCCHHHHHHHHHH
Confidence 467899999999999999999999999999999998888887777777764 235566666654
No 35
>PRK04374 PII uridylyl-transferase; Provisional
Probab=94.82 E-value=0.13 Score=60.35 Aligned_cols=68 Identities=13% Similarity=0.270 Sum_probs=56.7
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC------hHHHHHHHHHHhc
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA------SEQLKEKLLAALS 501 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~------~~~l~e~L~~aLs 501 (502)
.+-..|.|.+..++|+|.+|..+|.++|++|+.|.++|.+++++.+|.|.-..|. .+.+++.|.++|.
T Consensus 794 ~~~t~leI~a~DrpGLLa~Ia~~l~~~~l~I~~AkI~T~g~~a~D~F~V~d~~g~~~~~~~~~~l~~~L~~~l~ 867 (869)
T PRK04374 794 GRRTRISLVAPDRPGLLADVAHVLRMQHLRVHDARIATFGERAEDQFQITDEHDRPLSESARQALRDALCACLD 867 (869)
T ss_pred CCeEEEEEEeCCcCcHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEECCCCCcCChHHHHHHHHHHHHHhc
Confidence 3457899999999999999999999999999999999999999999999765542 1355666666553
No 36
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.52 E-value=0.23 Score=40.28 Aligned_cols=61 Identities=16% Similarity=0.207 Sum_probs=52.5
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCC-ChHHHHHHHHHH
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSG-ASEQLKEKLLAA 499 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g-~~~~l~e~L~~a 499 (502)
|.|.+++++|++.++-+.|.++|+.+.+.+.++.++.+...+.+..+.+ ....+++.|...
T Consensus 2 vtv~G~DrpGiv~~vt~~la~~~~nI~dl~~~~~~~~f~~~~~v~~p~~~~~~~l~~~l~~l 63 (75)
T cd04870 2 ITVTGPDRPGLTSALTEVLAAHGVRILDVGQAVIHGRLSLGILVQIPDSADSEALLKDLLFK 63 (75)
T ss_pred EEEEcCCCCCHHHHHHHHHHHCCCCEEecccEEEcCeeEEEEEEEcCCCCCHHHHHHHHHHH
Confidence 7889999999999999999999999999998888888888888888774 566777777654
No 37
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.49 E-value=0.34 Score=38.95 Aligned_cols=60 Identities=18% Similarity=0.212 Sum_probs=46.4
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe--cCCEEEEEEEEEeCCC--ChHHHHHHHHH
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST--TEDKVIHTFSIQTQSG--ASEQLKEKLLA 498 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~--~~~~v~~~~~vk~~~g--~~~~l~e~L~~ 498 (502)
|.|.|+.++|++.+|.+.|.++|+.+...+..+ .++.+...+.+..+.+ +...+++.|.+
T Consensus 2 i~v~g~D~~Giv~~it~~l~~~g~nI~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~l~~~l~~ 65 (74)
T cd04875 2 LTLSCPDRPGIVAAVSGFLAEHGGNIVESDQFVDPDSGRFFMRVEFELEGFDLSREALEAAFAP 65 (74)
T ss_pred EEEEcCCCCCHHHHHHHHHHHcCCCEEeeeeeecCCCCeEEEEEEEEeCCCCCCHHHHHHHHHH
Confidence 789999999999999999999999999999885 4455555556666542 45666666654
No 38
>PRK05092 PII uridylyl-transferase; Provisional
Probab=94.23 E-value=0.24 Score=58.67 Aligned_cols=68 Identities=16% Similarity=0.274 Sum_probs=56.8
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC-------hHHHHHHHHHHhc
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA-------SEQLKEKLLAALS 501 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~-------~~~l~e~L~~aLs 501 (502)
..-..|.|.|++++|+|.+|..+|.++|++|.++.+++.++.+..+|.|.-..|. .+.+++.|.++|.
T Consensus 841 ~~~t~i~I~~~DrpGLl~~I~~~l~~~gl~I~~A~I~T~~~~~~D~F~v~d~~g~~i~~~~~~~~l~~~L~~~L~ 915 (931)
T PRK05092 841 NRFTVIEVNGRDRPGLLYDLTRALSDLNLNIASAHIATYGERAVDVFYVTDLFGLKITNEARQAAIRRALLAALA 915 (931)
T ss_pred CCeEEEEEEECCcCcHHHHHHHHHHHCCceEEEEEEEEcCCEEEEEEEEeCCCCCcCCCHHHHHHHHHHHHHHhc
Confidence 3447899999999999999999999999999999999999999999999765442 1356666666664
No 39
>PRK03059 PII uridylyl-transferase; Provisional
Probab=94.09 E-value=0.2 Score=58.78 Aligned_cols=68 Identities=22% Similarity=0.312 Sum_probs=54.9
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCCh----HHHHHHHHHHhc
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGAS----EQLKEKLLAALS 501 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~----~~l~e~L~~aLs 501 (502)
.+-..|.|.++.++|+|.+|..+|..+|++|++|.++|.++.++.+|.|.-..... +.+++.|.++|+
T Consensus 784 ~~~T~i~V~a~DrpGLLa~Ia~~L~~~~l~I~~AkI~T~~~~v~DvF~V~~~~~~~~~~~~~l~~~L~~~L~ 855 (856)
T PRK03059 784 GQYYILSVSANDRPGLLYAIARVLAEHRVSVHTAKINTLGERVEDTFLIDGSGLSDNRLQIQLETELLDALA 855 (856)
T ss_pred CCEEEEEEEeCCcchHHHHHHHHHHHCCCeEEEEEEeecCCEEEEEEEEcCCCCCCHHHHHHHHHHHHHHhc
Confidence 34567999999999999999999999999999999999999999999994322222 355666666553
No 40
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=94.00 E-value=0.55 Score=37.26 Aligned_cols=48 Identities=13% Similarity=0.155 Sum_probs=41.5
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCC
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQS 486 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~ 486 (502)
|+|.++.++|.|.+|+.+|.+.|..+.+.++.... +.....|++++++
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~~~nI~~v~~~~~~~~~~~~~~~vev~~ 50 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEAGGDIGAIDLVEQGRDYTVRDITVDAPS 50 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHcCCcEEEEEEEEecCCEEEEEEEEEcCC
Confidence 78899999999999999999999999999987753 6666678888876
No 41
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=93.99 E-value=0.35 Score=37.34 Aligned_cols=48 Identities=15% Similarity=0.189 Sum_probs=38.6
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-----CCEEEEEEEEEeCC
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-----EDKVIHTFSIQTQS 486 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-----~~~v~~~~~vk~~~ 486 (502)
++|.++.++|.|.+|++.|.+.++.+.+.+.... .+.....+++++.+
T Consensus 1 ~~v~~~d~~G~L~~i~~~i~~~~~nI~~i~~~~~~~~~~~~~~~~~i~v~~~~ 53 (73)
T cd04886 1 LRVELPDRPGQLAKLLAVIAEAGANIIEVSHDRAFKTLPLGEVEVELTLETRG 53 (73)
T ss_pred CEEEeCCCCChHHHHHHHHHHcCCCEEEEEEEeccCCCCCceEEEEEEEEeCC
Confidence 4678899999999999999999999998887754 35555667777744
No 42
>PRK03381 PII uridylyl-transferase; Provisional
Probab=93.77 E-value=0.29 Score=56.85 Aligned_cols=65 Identities=12% Similarity=0.238 Sum_probs=55.5
Q ss_pred CceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCCh--HHHHHHHHHHh
Q 010728 435 EDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGAS--EQLKEKLLAAL 500 (502)
Q Consensus 435 ~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~--~~l~e~L~~aL 500 (502)
+-..|.|.++.++|+|.+|..+|.++|++|+++.+++.++.++.+|.|.-.+|.. +. .+.|+++|
T Consensus 706 ~~t~i~V~a~DrpGLla~Ia~~L~~~~lnI~~AkI~T~g~~a~D~F~V~d~~g~~~~~~-~~~l~~~L 772 (774)
T PRK03381 706 DATVLEVRAADRPGLLARLARALERAGVDVRWARVATLGADVVDVFYVTGAAGGPLADA-RAAVEQAV 772 (774)
T ss_pred CeEEEEEEeCCchhHHHHHHHHHHHCCCeEEEEEEeecCCeEEEEEEEECCCCCcCchH-HHHHHHHh
Confidence 3478999999999999999999999999999999999999999999998766522 23 66666665
No 43
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=93.67 E-value=0.055 Score=50.28 Aligned_cols=51 Identities=35% Similarity=0.434 Sum_probs=45.6
Q ss_pred CCccccHHHHHHHHHHHHHHHHHhhcCCC--CCCCChhcHHHHHHHHHHHHHH
Q 010728 354 EPLNHVEAERQRREKLNQRFYALRAVVPN--ISKMDKASLLGDAITYITDLQM 404 (502)
Q Consensus 354 ~~~~H~~~ER~RR~kln~~f~~LrslvP~--~~K~dKasiL~~aI~YIk~Lq~ 404 (502)
++.-|++-||+|=.-||+.|.+||.++|. +.|..|.--|.-|-.||..|-+
T Consensus 78 qrv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~ 130 (173)
T KOG4447|consen 78 QRVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQ 130 (173)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhh
Confidence 35789999999999999999999999995 5788898899999999988854
No 44
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=93.59 E-value=0.27 Score=57.58 Aligned_cols=54 Identities=17% Similarity=0.215 Sum_probs=49.4
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCC
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSG 487 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g 487 (502)
..-..|.|.|.+++|+|.+|.++|.++|++|.++.+++.++.+..+|.+....|
T Consensus 777 ~~~t~~~v~~~DrpGll~~i~~~l~~~~~~i~~a~i~t~~~~~~d~F~v~~~~g 830 (850)
T TIGR01693 777 RKATIMEVRALDRPGLLARVGRTLEELGLSIQSAKITTFGEKAEDVFYVTDLFG 830 (850)
T ss_pred CCeEEEEEEECCccHHHHHHHHHHHHCCCeEEEEEEEecCccceeEEEEECCCC
Confidence 345789999999999999999999999999999999999999999999987654
No 45
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=93.02 E-value=0.37 Score=55.50 Aligned_cols=63 Identities=14% Similarity=0.333 Sum_probs=54.7
Q ss_pred Ccccccc--cCCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC
Q 010728 426 PEIDFQP--RHEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA 488 (502)
Q Consensus 426 ~~V~V~i--~~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~ 488 (502)
|+|++.. ..+...++|.+..++|+|.+|-.+|.+++|++++|.+++.|.++..+|.|....|.
T Consensus 779 p~v~i~~t~~~~~t~lEv~alDRpGLLa~v~~v~~dl~l~i~~AkItT~GErveD~F~vt~~~~~ 843 (867)
T COG2844 779 PRVTILPTASNDKTVLEVRALDRPGLLAALAGVFADLGLSLHSAKITTFGERVEDVFIVTDADGQ 843 (867)
T ss_pred CceeeccccCCCceEEEEEeCCcccHHHHHHHHHHhcccceeeeeeccccccceeEEEEeccccc
Confidence 5666543 34457799999999999999999999999999999999999999999999887763
No 46
>PRK03381 PII uridylyl-transferase; Provisional
Probab=92.96 E-value=0.56 Score=54.57 Aligned_cols=68 Identities=18% Similarity=0.265 Sum_probs=57.4
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC---hHHHHHHHHHHhc
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA---SEQLKEKLLAALS 501 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~---~~~l~e~L~~aLs 501 (502)
.+.+.|.|.|++++|++++|..+|..+|+.|++|++.+.++.++.+|.|.-+.|. .+.+++.|..+|+
T Consensus 597 ~~~~~V~V~~~DrpGLfa~i~~vL~~~glnI~dA~i~t~dg~~ld~F~V~~~~~~~~~~~~l~~~L~~~L~ 667 (774)
T PRK03381 597 PHMVEVTVVAPDRRGLLSKAAGVLALHRLRVRSASVRSHDGVAVLEFVVSPRFGSPPDAALLRQDLRRALD 667 (774)
T ss_pred CCeEEEEEEecCCccHHHHHHHHHHHCCCeEEEeEEEecCCEEEEEEEEECCCCCcchHHHHHHHHHHHHc
Confidence 4567899999999999999999999999999999999988999999999876553 3456777776664
No 47
>PRK05007 PII uridylyl-transferase; Provisional
Probab=92.91 E-value=0.53 Score=55.54 Aligned_cols=69 Identities=14% Similarity=0.274 Sum_probs=55.9
Q ss_pred cCCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCC-EEEEEEEEEeCCCCh------HHHHHHHHHHhc
Q 010728 433 RHEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTED-KVIHTFSIQTQSGAS------EQLKEKLLAALS 501 (502)
Q Consensus 433 ~~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~-~v~~~~~vk~~~g~~------~~l~e~L~~aLs 501 (502)
..+...|.|.|+.++|+|.+|..+|..++++|+.|.+.+.++ .++.+|.|.-.+|.. +.+++.|.++|+
T Consensus 698 ~~~~t~V~V~a~DrpGLfa~Ia~~La~~~L~I~~A~I~T~~dg~alD~F~V~d~~g~~~~~~~~~~I~~~L~~aL~ 773 (884)
T PRK05007 698 TRGGTEIFIWSPDRPYLFAAVCAELDRRNLSVHDAQIFTSRDGMAMDTFIVLEPDGSPLSQDRHQVIRKALEQALT 773 (884)
T ss_pred CCCeEEEEEEecCCcCHHHHHHHHHHHCCCEEEEEEEEEcCCCeEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHc
Confidence 345678999999999999999999999999999999887655 899999997666521 246666666664
No 48
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=92.86 E-value=0.57 Score=54.96 Aligned_cols=68 Identities=18% Similarity=0.281 Sum_probs=55.7
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEE-ecCCEEEEEEEEEeCCCC---h----HHHHHHHHHHhc
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVS-TTEDKVIHTFSIQTQSGA---S----EQLKEKLLAALS 501 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s-~~~~~v~~~~~vk~~~g~---~----~~l~e~L~~aLs 501 (502)
.+...|.|.+++++|+|.+|..+|..+|++|+.|.+. +.++.++.+|.|.-..|. . +.+++.|..+|+
T Consensus 666 ~~~t~i~V~~~DrpgLla~i~~~L~~~~l~I~~A~I~tt~~g~~lD~F~V~~~~g~~~~~~~~~~~i~~~L~~~L~ 741 (850)
T TIGR01693 666 SGGTEVFIYAPDQPGLFAKVAGALAMLSLSVHDAQVNTTKDGVALDTFVVQDLFGSPPAAERVFQELLQGLVDVLA 741 (850)
T ss_pred CCeEEEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEecCCEEEEEEEEECCCCCCCCcHHHHHHHHHHHHHHHc
Confidence 3456799999999999999999999999999999999 678899999999877652 1 235556666654
No 49
>PRK01759 glnD PII uridylyl-transferase; Provisional
Probab=92.39 E-value=0.66 Score=54.56 Aligned_cols=69 Identities=17% Similarity=0.318 Sum_probs=55.7
Q ss_pred cCCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe-cCCEEEEEEEEEeCCCCh------HHHHHHHHHHhc
Q 010728 433 RHEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST-TEDKVIHTFSIQTQSGAS------EQLKEKLLAALS 501 (502)
Q Consensus 433 ~~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~-~~~~v~~~~~vk~~~g~~------~~l~e~L~~aLs 501 (502)
..+...|.|.|++++|+|.+|..+|..+||+|+.|.+.+ .++.++.+|.|.-.+|.. +.+++.|..+|+
T Consensus 674 ~~~~t~V~V~~~DrpGLfa~Ia~~L~~~~L~I~~A~I~T~~~g~alD~F~V~d~~g~~~~~~~~~~l~~~L~~aL~ 749 (854)
T PRK01759 674 SRGGTEIFIYCQDQANLFLKVVSTIGAKKLSIHDAQIITSQDGYVLDSFIVTELNGKLLEFDRRRQLEQALTKALN 749 (854)
T ss_pred CCCeEEEEEEecCCccHHHHHHHHHHHCCCeEEEEEEEEccCCEEEEEEEEeCCCCCCCCHHHHHHHHHHHHHHHc
Confidence 445578999999999999999999999999999999877 788999999997665421 245566666554
No 50
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=92.35 E-value=0.11 Score=56.97 Aligned_cols=39 Identities=33% Similarity=0.617 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCC----CCCCChhcHHHHHHHHHH
Q 010728 362 ERQRREKLNQRFYALRAVVPN----ISKMDKASLLGDAITYIT 400 (502)
Q Consensus 362 ER~RR~kln~~f~~LrslvP~----~~K~dKasiL~~aI~YIk 400 (502)
-+|-|+|||..+..|.+|+|. ++|.||.|||.=++.|++
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence 356799999999999999994 699999999999999985
No 51
>cd04888 ACT_PheB-BS C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains. This CD includes the C-terminal ACT domain of a small (~147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and other related ACT domains. In B. subtilis, the upstream gene of pheB, pheA encodes prephenate dehydratase (PDT). The presumed product of the pheB gene is chorismate mutase (CM). The deduced product of the B. subtilis pheB gene, however, has no significant homology to the CM portion of the bifunctional CM-PDT of Escherichia coli. The presence of an ACT domain lends support to the prediction that these proteins function as a phenylalanine-binding regulatory protein. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=92.09 E-value=1.3 Score=35.23 Aligned_cols=49 Identities=16% Similarity=0.111 Sum_probs=40.4
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-CCEEEEEEEEEeCC
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-EDKVIHTFSIQTQS 486 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-~~~v~~~~~vk~~~ 486 (502)
.++|.++.++|.+.+|++.|.+.++.+...+.+.. ++.....|++.+.+
T Consensus 2 ~l~i~~~d~~g~l~~I~~~la~~~inI~~i~~~~~~~~~~~i~~~v~v~~ 51 (76)
T cd04888 2 TLSLLLEHRPGVLSKVLNTIAQVRGNVLTINQNIPIHGRANVTISIDTST 51 (76)
T ss_pred EEEEEecCCCchHHHHHHHHHHcCCCEEEEEeCCCCCCeEEEEEEEEcCc
Confidence 57888999999999999999999999999987654 35555677777755
No 52
>PRK03059 PII uridylyl-transferase; Provisional
Probab=91.66 E-value=0.88 Score=53.53 Aligned_cols=68 Identities=16% Similarity=0.193 Sum_probs=54.3
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEE-ecCCEEEEEEEEEeCCCC------hHHHHHHHHHHhc
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVS-TTEDKVIHTFSIQTQSGA------SEQLKEKLLAALS 501 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s-~~~~~v~~~~~vk~~~g~------~~~l~e~L~~aLs 501 (502)
.+...|-|.|+.++|+|++|..+|..+|++|+.|.+. +.++.++.+|.|.-+.|. .+.+++.|..+|+
T Consensus 676 ~~~~~v~i~~~d~~gLFa~i~g~l~~~~l~I~~A~i~t~~~g~~ld~f~V~~~~~~~~~~~~~~~i~~~l~~~l~ 750 (856)
T PRK03059 676 GEGLQVMVYTPDQPDLFARICGYFDRAGFSILDARVHTTRHGYALDTFQVLDPEEDVHYRDIINLVEHELAERLA 750 (856)
T ss_pred CCeEEEEEEecCCCcHHHHHHHHHHHCCCceeeeEEEEcCCCeEEEEEEEeCCCCCCChHHHHHHHHHHHHHHHc
Confidence 3557789999999999999999999999999999995 567889999999765543 1245566666654
No 53
>cd04894 ACT_ACR-like_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=91.56 E-value=0.9 Score=36.52 Aligned_cols=62 Identities=18% Similarity=0.244 Sum_probs=48.0
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCC----ChHHHHHHHHHH
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSG----ASEQLKEKLLAA 499 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g----~~~~l~e~L~~a 499 (502)
.|.|.||.+.|+-.++...+-+.||.+....+++.+.=-+..|-+.-... .=..+|++|.++
T Consensus 2 vitvnCPDktGLgcdlcr~il~fGl~i~rgd~sTDGkWCyiv~wVv~~~~~~~~rW~lLK~RL~~~ 67 (69)
T cd04894 2 VITINCPDKTGLGCDLCRIILEFGLNITRGDDSTDGRWCYIVFWVVPRPPSIKVRWDLLKNRLMSA 67 (69)
T ss_pred EEEEeCCCccCcccHHHHHHHHhceEEEecccccCCcEEEEEEEEecCCCCCcccHHHHHHHHHhc
Confidence 58999999999999999999999999999999999775444555533321 124778887764
No 54
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=91.40 E-value=0.099 Score=56.63 Aligned_cols=56 Identities=21% Similarity=0.285 Sum_probs=46.8
Q ss_pred CCccccHHHHHHHHHHHHHHHHHhhcCCC----CCCCChhcHHHHHHHHHHHHHHHHHHH
Q 010728 354 EPLNHVEAERQRREKLNQRFYALRAVVPN----ISKMDKASLLGDAITYITDLQMKIRVL 409 (502)
Q Consensus 354 ~~~~H~~~ER~RR~kln~~f~~LrslvP~----~~K~dKasiL~~aI~YIk~Lq~~v~~L 409 (502)
.++.+++.||-|=..||+.|..|..+.-- -..-.|.-||..|+.-|-.|+++|.+-
T Consensus 526 RR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 526 RRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred HHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 45788999999988999999999887642 223468999999999999999999864
No 55
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=91.24 E-value=2.2 Score=31.48 Aligned_cols=48 Identities=13% Similarity=0.187 Sum_probs=38.7
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCC
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQS 486 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~ 486 (502)
|+|.++++++.+.++++.|.+.++++.+......+ +.....+++++..
T Consensus 1 l~v~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~ 49 (71)
T cd04876 1 IRVEAIDRPGLLADITTVIAEEKINILSVNTRTDDDGLATIRLTLEVRD 49 (71)
T ss_pred CEEEEeccCcHHHHHHHHHHhCCCCEEEEEeEECCCCEEEEEEEEEECC
Confidence 46788999999999999999999999999887665 5445566676654
No 56
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=90.50 E-value=1.5 Score=30.55 Aligned_cols=35 Identities=20% Similarity=0.193 Sum_probs=30.9
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE 473 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~ 473 (502)
|++.|+.+++.+.+++..|...++.+.........
T Consensus 1 i~i~~~~~~~~l~~i~~~l~~~~~~i~~~~~~~~~ 35 (60)
T cd02116 1 LTVSGPDRPGLLAKVLSVLAEAGINITSIEQRTSG 35 (60)
T ss_pred CEEEecCCCchHHHHHHHHHHCCCcEEEEEeEEcC
Confidence 46788889999999999999999999999887653
No 57
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=90.10 E-value=0.25 Score=52.49 Aligned_cols=43 Identities=40% Similarity=0.589 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCC----CCCCChhcHHHHHHHHHHHH
Q 010728 360 EAERQRREKLNQRFYALRAVVPN----ISKMDKASLLGDAITYITDL 402 (502)
Q Consensus 360 ~~ER~RR~kln~~f~~LrslvP~----~~K~dKasiL~~aI~YIk~L 402 (502)
-+-|.||++-|-.|+.|..++|- .+..||++|+.-|..|||.-
T Consensus 7 naA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 35689999999999999999993 36799999999999999863
No 58
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, and related domains. This CD includes the N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, from Archaeoglobus fulgidus and other related archeal ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=90.06 E-value=2.4 Score=32.56 Aligned_cols=47 Identities=6% Similarity=0.010 Sum_probs=36.7
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCC
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQS 486 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~ 486 (502)
.|++.++.++|.+.+++..|.+.++.+.+.+....+ +... +.+.+++
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~--~~i~~~~ 49 (72)
T cd04874 2 ALSIIAEDKPGVLRDLTGVIAEHGGNITYTQQFIEREGKAR--IYMELEG 49 (72)
T ss_pred eEEEEeCCCCChHHHHHHHHHhCCCCEEEEEEeccCCCeEE--EEEEEec
Confidence 478899999999999999999999999988877653 3433 3455544
No 59
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=89.98 E-value=0.21 Score=56.21 Aligned_cols=43 Identities=40% Similarity=0.615 Sum_probs=38.2
Q ss_pred cHHHHHHHHHHHHHHHHHhhcCCC----CCCCChhcHHHHHHHHHHH
Q 010728 359 VEAERQRREKLNQRFYALRAVVPN----ISKMDKASLLGDAITYITD 401 (502)
Q Consensus 359 ~~~ER~RR~kln~~f~~LrslvP~----~~K~dKasiL~~aI~YIk~ 401 (502)
..|-|-||.|-|+-|+.|..+||- .+-.|||||+.=||.|++-
T Consensus 51 RdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 51 RDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 457799999999999999999992 4778999999999999874
No 60
>PRK00275 glnD PII uridylyl-transferase; Provisional
Probab=89.60 E-value=1.5 Score=51.85 Aligned_cols=67 Identities=13% Similarity=0.288 Sum_probs=52.9
Q ss_pred CceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEE-ecCCEEEEEEEEEeCCCCh--------HHHHHHHHHHhc
Q 010728 435 EDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVS-TTEDKVIHTFSIQTQSGAS--------EQLKEKLLAALS 501 (502)
Q Consensus 435 ~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s-~~~~~v~~~~~vk~~~g~~--------~~l~e~L~~aLs 501 (502)
+...|.|.|+.++|+|++|..+|..+|++|+.|.+. +.++.++.+|.|.-.+|.. +.+++.|..+|+
T Consensus 703 ~~t~V~V~~~DrpgLFa~i~g~L~~~~lnI~~A~I~Tt~dg~alD~F~V~d~~g~~~~~~~~r~~~i~~~L~~~L~ 778 (895)
T PRK00275 703 GGTQIFIYAPDQHDFFAATVAAMDQLNLNIHDARIITSSSQFTLDTYIVLDDDGEPIGDNPARIEQIREGLTEALR 778 (895)
T ss_pred CeEEEEEEeCCCCcHHHHHHHHHHHCCCeEEEEEEEEcCCCeEEEEEEEeCCCCCCccchHHHHHHHHHHHHHHHc
Confidence 567799999999999999999999999999999985 5567889999997665432 134555555553
No 61
>PRK04435 hypothetical protein; Provisional
Probab=89.48 E-value=2.9 Score=38.73 Aligned_cols=55 Identities=18% Similarity=0.085 Sum_probs=47.2
Q ss_pred ccCCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-CCEEEEEEEEEeCC
Q 010728 432 PRHEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-EDKVIHTFSIQTQS 486 (502)
Q Consensus 432 i~~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-~~~v~~~~~vk~~~ 486 (502)
..|..+.|.+.+.+++|.|.+|++.|.+.++.|...+.+.. ++....+|++.+.+
T Consensus 65 ~~~r~vtL~i~l~Dr~GlLs~Il~~IA~~~aNIltI~q~i~~~g~a~vs~tVevs~ 120 (147)
T PRK04435 65 VKGKIITLSLLLEDRSGTLSKVLNVIAEAGGNILTINQSIPLQGRANVTISIDTSS 120 (147)
T ss_pred CCCcEEEEEEEEecCCCHHHHHHHHHHHcCCCeEEEEEEcCCCCEEEEEEEEEeCC
Confidence 56788999999999999999999999999999999987654 46666778887765
No 62
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=89.29 E-value=1.6 Score=34.20 Aligned_cols=60 Identities=20% Similarity=0.184 Sum_probs=41.4
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCCCChHHHHHHHHH
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQSGASEQLKEKLLA 498 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~g~~~~l~e~L~~ 498 (502)
.+++.++.++|.|.++++.|.++++.+........ +..-...+.++.++ ..+.+.+.|.+
T Consensus 3 ~~~v~~~d~~G~L~~l~~~l~~~~i~i~~~~~~~~~~~~~~~~~i~v~~~~-~~~~~~~~L~~ 64 (69)
T cd04909 3 DLYVDVPDEPGVIAEVTQILGDAGISIKNIEILEIREGIGGILRISFKTQE-DRERAKEILKE 64 (69)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCceeeEeEEeecCCcEEEEEEECCHH-HHHHHHHHHHH
Confidence 47788999999999999999999999988876554 21222345555433 34455555543
No 63
>PRK05092 PII uridylyl-transferase; Provisional
Probab=89.16 E-value=1.8 Score=51.42 Aligned_cols=67 Identities=19% Similarity=0.172 Sum_probs=53.5
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe-cCCEEEEEEEEEeCCCC-------hHHHHHHHHHHh
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST-TEDKVIHTFSIQTQSGA-------SEQLKEKLLAAL 500 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~-~~~~v~~~~~vk~~~g~-------~~~l~e~L~~aL 500 (502)
.+...|.|.|+.++|+|.+|..+|..+|++|+.+.+.+ .++.++.+|.|.-+.|. .+.+++.|..+|
T Consensus 730 ~~~t~v~I~~~Dr~GLfa~i~~~L~~~glnI~~A~I~t~~dg~alD~F~V~~~~g~~~~~~~~~~~l~~~L~~~l 804 (931)
T PRK05092 730 RGVTEVTVLAADHPGLFSRIAGACAAAGANIVDARIFTTTDGRALDTFWIQDAFGRDEDEPRRLARLAKAIEDAL 804 (931)
T ss_pred CCeEEEEEEeCCCCcHHHHHHHHHHHCCCcEEEEEEEEecCCeEEEEEEEECCCCCCCCCHHHHHHHHHHHHHHH
Confidence 35678999999999999999999999999999999887 56778888988766552 224555565555
No 64
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=88.77 E-value=3.2 Score=32.53 Aligned_cols=60 Identities=20% Similarity=0.282 Sum_probs=42.1
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCCCChHHHHHHHHH
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQSGASEQLKEKLLA 498 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~g~~~~l~e~L~~ 498 (502)
..|.+..++++|.+.++++.|.+.++.+.+...... .+.....|.+...+ .+.+.+.|.+
T Consensus 2 ~~~~v~~~d~pG~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~--~~~~~~~L~~ 63 (72)
T cd04883 2 SQIEVRVPDRPGQLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMN--PRPIIEDLRR 63 (72)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCC--HHHHHHHHHH
Confidence 357788999999999999999999999988865543 23444455554422 3455555554
No 65
>PRK04374 PII uridylyl-transferase; Provisional
Probab=88.58 E-value=2.1 Score=50.53 Aligned_cols=68 Identities=18% Similarity=0.244 Sum_probs=54.7
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe-cCCEEEEEEEEEeCCCC-h---HHHHHHHHHHhc
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST-TEDKVIHTFSIQTQSGA-S---EQLKEKLLAALS 501 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~-~~~~v~~~~~vk~~~g~-~---~~l~e~L~~aLs 501 (502)
.+...|-|.|+.++|+|++|..+|..+|+.|+.|.+.+ .++.++.+|.|.-+.|. . ..+++.|..+|+
T Consensus 688 ~~~~~v~v~~~d~~gLFa~i~g~l~~~~lnI~~A~i~t~~~g~~ld~f~V~~~~~~~~~~~~~i~~~l~~~l~ 760 (869)
T PRK04374 688 NDALEVFVYSPDRDGLFAAIVATLDRKGYGIHRARVLDAPHDAIFDVFEVLPQDTYADGDPQRLAAALRQVLA 760 (869)
T ss_pred CCeEEEEEEeCCCccHHHHHHHHHHHCCCeEEEEEEEEcCCCEEEEEEEEeCCCCCChHHHHHHHHHHHHHHc
Confidence 35567889999999999999999999999999999987 57889999999776653 1 235555555553
No 66
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=88.36 E-value=2.9 Score=31.81 Aligned_cols=57 Identities=18% Similarity=0.153 Sum_probs=41.8
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC--CEEEEEEEEEeCCCChHHHHHHHH
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE--DKVIHTFSIQTQSGASEQLKEKLL 497 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~--~~v~~~~~vk~~~g~~~~l~e~L~ 497 (502)
+.|..+.++|.+.+|++.|.+.++.+.+..+.... +.....+.+ +......+.++|.
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~~~~~~~~~v--~~~~~~~l~~~l~ 60 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEHGINIAAMQVGRKEKGGIAYMVLDV--DSPVPEEVLEELK 60 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhcCCCeeeEEEeccCCCCEEEEEEEc--CCCCCHHHHHHHH
Confidence 56788999999999999999999999999988754 555555555 3322334555544
No 67
>cd04877 ACT_TyrR N-terminal ACT domain of the TyrR protein. ACT_TyrR: N-terminal ACT domain of the TyrR protein. The TyrR protein of Escherichia coli controls the expression of a group of transcription units (TyrR regulon) whose gene products are involved in the biosynthesis or transport of the aromatic amino acids. Binding to specific DNA sequences known as TyrR boxes, the TyrR protein can either activate or repress transcription at different sigma70 promoters. Its regulatory activity occurs in response to intracellular levels of tyrosine, phenylalanine and tryptophan. The TyrR protein consists of an N-terminal region important for transcription activation with an ATP-independent aromatic amino acid binding site (contained within the ACT domain) and is involved in dimerization; a central region with an ATP binding site, an ATP-dependent aromatic amino acid binding site and is involved in hexamerization; and a helix turn helix DNA binding C-terminal region. In solution, in the absence
Probab=88.12 E-value=3.7 Score=32.98 Aligned_cols=46 Identities=13% Similarity=0.200 Sum_probs=38.7
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCC
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQS 486 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~ 486 (502)
.|+|.|.++.|++.+|+.++.+.++.+.+.++... +. ..+.+++.+
T Consensus 2 ~l~I~~~dr~Gll~dI~~~i~~~~~nI~~~~~~~~-~~--i~l~i~v~~ 47 (74)
T cd04877 2 RLEITCEDRLGITQEVLDLLVEHNIDLRGIEIDPK-GR--IYLNFPTIE 47 (74)
T ss_pred EEEEEEEccchHHHHHHHHHHHCCCceEEEEEecC-Ce--EEEEeEecC
Confidence 47899999999999999999999999999998775 44 346666654
No 68
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=87.96 E-value=3.5 Score=33.01 Aligned_cols=47 Identities=13% Similarity=0.108 Sum_probs=37.0
Q ss_pred EEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCC-EEEEEEEEEeCC
Q 010728 440 RVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTED-KVIHTFSIQTQS 486 (502)
Q Consensus 440 ~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~-~v~~~~~vk~~~ 486 (502)
-+..++++|.|.++++.+++.|+.+.+..+....+ .--+.|.+.+.+
T Consensus 3 ~~~l~d~pG~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~id~~~ 50 (75)
T cd04880 3 VFSLKNKPGALAKALKVFAERGINLTKIESRPSRKGLWEYEFFVDFEG 50 (75)
T ss_pred EEEeCCcCCHHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEEEEEC
Confidence 34556789999999999999999999998876543 445677777754
No 69
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=87.65 E-value=3.4 Score=31.57 Aligned_cols=47 Identities=11% Similarity=0.080 Sum_probs=38.2
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEe
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQT 484 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~ 484 (502)
++++.+..++|.+.+|+..|.+.++.+.+.+.... ++.....+.+..
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 50 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARRGFNIESLTVGPTEDPGISRITIVVEG 50 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCCEEEEEeeecCCCCeEEEEEEEEC
Confidence 47788899999999999999999999999988764 355555666654
No 70
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A ....
Probab=87.54 E-value=0.77 Score=40.05 Aligned_cols=64 Identities=20% Similarity=0.187 Sum_probs=39.6
Q ss_pred CcceeecCCCceEeeCCCCCCCCcchhhhhhhhcCCceEEEeec--CC---ceeeecccccccCCHHHHHHHH
Q 010728 161 GPGHAYKSGRSIWTSGIVSCSDHYESRSFLAMSAGFQTVVFVPA--KS---GVVELGSVKLIPEEQNVVEMVK 228 (502)
Q Consensus 161 lpG~a~~sg~~~Wl~~~~~~~~~~~~R~~lA~saGIqTvvcIPv--~~---GVvELGSt~~I~Ed~~lv~~vk 228 (502)
+.+.++.+++|+|+. .+...+.....+...|++.++|||+ .+ |||.|++.+.-.=+..-+..+.
T Consensus 69 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~s~l~vPl~~~~~~~Gvl~l~~~~~~~f~~~~~~~l~ 137 (148)
T PF13185_consen 69 LWEGVLRTGEPIIIN----DDDSSFPPWELARHPGIRSILCVPLRSGGEVIGVLSLYSKEPNAFSEEDLELLE 137 (148)
T ss_dssp TTSHHHHHTS-EEES----CCCGGGSTTHHHCCTT-SEEEEEEEEETTEEEEEEEEEESSTT---HHHHHHHH
T ss_pred HHHHHHhcCceEEEe----CccccccchhhhccccCCEEEEEEEeECCEEEEEEEEeeCCCCCcCHHHHHHHH
Confidence 344458899999998 1122222245667889999999999 33 8999999776444444444443
No 71
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=87.08 E-value=4.4 Score=31.69 Aligned_cols=57 Identities=18% Similarity=0.169 Sum_probs=42.6
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHH
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLA 498 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~ 498 (502)
.|.|..++++|.|.+|++.|.+.|+.|.+.-+...++. -.+.+.. + +.+.+.+.|.+
T Consensus 3 ri~v~v~d~pG~La~v~~~l~~~~inI~~i~~~~~~~~--~~~rl~~-~-~~~~~~~~L~~ 59 (66)
T cd04908 3 QLSVFLENKPGRLAAVTEILSEAGINIRALSIADTSEF--GILRLIV-S-DPDKAKEALKE 59 (66)
T ss_pred EEEEEEcCCCChHHHHHHHHHHCCCCEEEEEEEecCCC--CEEEEEE-C-CHHHHHHHHHH
Confidence 36678899999999999999999999998887766563 4556656 3 33455555543
No 72
>PRK08577 hypothetical protein; Provisional
Probab=86.25 E-value=6.9 Score=35.48 Aligned_cols=51 Identities=4% Similarity=0.014 Sum_probs=42.2
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCC
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQS 486 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~ 486 (502)
.+.|+|.+.+++|.|.+|++.|.++++.+.+.++... ++.....+++.+++
T Consensus 56 ~~~I~V~~~Dr~GvLa~I~~~l~~~~inI~~i~~~~~~~~~~~~i~l~vev~~ 108 (136)
T PRK08577 56 LVEIELVVEDRPGVLAKITGLLAEHGVDILATECEELKRGELAECVIIVDLSK 108 (136)
T ss_pred EEEEEEEEcCCCCHHHHHHHHHHHCCCCEEEEEEEEecCCCEEEEEEEEEeCC
Confidence 5778999999999999999999999999998877664 35555667777766
No 73
>cd04881 ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains. The ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) encoded by the hom gene of Bacillus subtilis and other related sequences. HSDH reduces aspartate semi-aldehyde to the amino acid homoserine, one that is required for the biosynthesis of Met, Thr, and Ile from Asp. Neither the enzyme nor the aspartate pathway is found in the animal kingdom. This mostly bacterial HSDH group has a C-terminal ACT domain and is believed to be involved in enzyme regulation. A C-terminal deletion in the Corynebacterium glutamicum HSDH abolished allosteric inhibition by L-threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=85.88 E-value=5.4 Score=31.03 Aligned_cols=47 Identities=9% Similarity=0.123 Sum_probs=37.2
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC--CEEEEEEEEEe
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE--DKVIHTFSIQT 484 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~--~~v~~~~~vk~ 484 (502)
+|+|.+.+++|.+.+++..|.+.++.+.+.+..... +.....+.++.
T Consensus 2 yl~i~~~d~~g~l~~i~~~l~~~~i~I~~~~~~~~~~~~~~~~~i~~~~ 50 (79)
T cd04881 2 YLRLTVKDKPGVLAKITGILAEHGISIESVIQKEADGGETAPVVIVTHE 50 (79)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHcCCCeEEEEEcccCCCCceeEEEEEcc
Confidence 689999999999999999999999999998876542 44444454543
No 74
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=85.37 E-value=3.3 Score=31.59 Aligned_cols=56 Identities=18% Similarity=0.183 Sum_probs=39.6
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC--CEEEEEEEEEeCCCChHHHHHHHHH
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE--DKVIHTFSIQTQSGASEQLKEKLLA 498 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~--~~v~~~~~vk~~~g~~~~l~e~L~~ 498 (502)
|.|.-+.++|.|.++++.|.+.++.+.+....... +.. .+.++++. .+.+.+.|.+
T Consensus 2 i~v~~~d~pG~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~--~v~~~ve~--~~~~~~~L~~ 59 (65)
T cd04882 2 LAVEVPDKPGGLHEILQILSEEGINIEYMYAFVEKKGGKA--LLIFRTED--IEKAIEVLQE 59 (65)
T ss_pred EEEEeCCCCcHHHHHHHHHHHCCCChhheEEEccCCCCeE--EEEEEeCC--HHHHHHHHHH
Confidence 56778899999999999999999999877765543 343 34455543 4455555554
No 75
>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This CD includes the C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This protein has two N-terminal tandem CBS domains and a single C-terminal ACT domain. The CBS domain is found in a wide range of proteins, often in tandem arrangements and together with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=85.09 E-value=7 Score=30.99 Aligned_cols=34 Identities=9% Similarity=-0.042 Sum_probs=29.9
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT 472 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~ 472 (502)
+.+.-+.++|.|.++++.|.+.|..+++......
T Consensus 2 l~v~~~d~pG~L~~l~~~i~~~g~nI~~i~~~~~ 35 (72)
T cd04884 2 FTFLLEDKPGTLKPVVDTLREFNARIISILTAFE 35 (72)
T ss_pred EEEEecCCCccHHHHHHHHHHCCCeEEEEEeccc
Confidence 5667789999999999999999999998877664
No 76
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=84.17 E-value=6.2 Score=40.54 Aligned_cols=61 Identities=15% Similarity=0.209 Sum_probs=49.2
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCCC--ChHHHHHHHHH
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQSG--ASEQLKEKLLA 498 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~g--~~~~l~e~L~~ 498 (502)
.|.+.|+++.|+.+.|-..|-+.|+.+++++.+.. ++.++..+.+..+.. +.+.+++.+.+
T Consensus 2 ~itv~g~D~~GIVA~Vt~~La~~g~NI~d~sq~~~~~~~~F~mr~~v~~~~~~~~~~~l~~~l~~ 66 (280)
T TIGR00655 2 ILLVSCPDQKGLVAAISTFIAKHGANIISNDQHTDPETGRFFMRVEFQLEGFRLEESSLLAAFKS 66 (280)
T ss_pred EEEEECCCCCChHHHHHHHHHHCCCCEEeeeEEEcCCCCeEEEEEEEEeCCCCCCHHHHHHHHHH
Confidence 47899999999999999999999999999998884 477777777776542 34566766665
No 77
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=84.05 E-value=6.4 Score=29.96 Aligned_cols=57 Identities=18% Similarity=0.230 Sum_probs=39.3
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCCCChHHHHHHHH
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQSGASEQLKEKLL 497 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~g~~~~l~e~L~ 497 (502)
+.+.+++++|.+.++...|.++++.+.+...... ++..... +.+++-....+.++|.
T Consensus 2 l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~~~~~~~~~~i~--i~v~~~~~~~~i~~l~ 60 (71)
T cd04903 2 LIVVHKDKPGAIAKVTSVLADHEINIAFMRVSRKEKGDQALMV--IEVDQPIDEEVIEEIK 60 (71)
T ss_pred EEEEeCCCCChHHHHHHHHHHcCcCeeeeEEEeccCCCeEEEE--EEeCCCCCHHHHHHHH
Confidence 6788999999999999999999999998887662 2443323 5554422233444443
No 78
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=84.02 E-value=7.1 Score=40.17 Aligned_cols=64 Identities=17% Similarity=0.179 Sum_probs=50.8
Q ss_pred CceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe--cCCEEEEEEEEEe-CCC-ChHHHHHHHHH
Q 010728 435 EDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST--TEDKVIHTFSIQT-QSG-ASEQLKEKLLA 498 (502)
Q Consensus 435 ~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~--~~~~v~~~~~vk~-~~g-~~~~l~e~L~~ 498 (502)
..+.|.+.|++++|++.+|-+.|.++|+.+.+++.++ .++.+...+.+.. +.. +.+.+++.|.+
T Consensus 5 ~~~vitv~G~DrpGIVa~Vt~~La~~g~NI~d~s~~~~~~~g~F~m~i~v~~~~~~~~~~~L~~~L~~ 72 (286)
T PRK06027 5 QRYVLTLSCPDRPGIVAAVSNFLYEHGGNIVDADQFVDPETGRFFMRVEFEGDGLIFNLETLRADFAA 72 (286)
T ss_pred ceEEEEEECCCCCcHHHHHHHHHHHCCCCEEEceeEEcCCCCeEEEEEEEEeCCCCCCHHHHHHHHHH
Confidence 3577999999999999999999999999999999999 7787766777766 221 34566665553
No 79
>PRK07334 threonine dehydratase; Provisional
Probab=83.40 E-value=6.9 Score=41.91 Aligned_cols=53 Identities=15% Similarity=0.035 Sum_probs=45.4
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-----CCEEEEEEEEEeCC
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-----EDKVIHTFSIQTQS 486 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-----~~~v~~~~~vk~~~ 486 (502)
+-.+.|+|.+.+++|+|.+|+..|.+.++.|.++++... ++.+...|++++++
T Consensus 324 ~y~v~l~I~~~dr~GlL~dI~~~is~~~~nI~~v~~~~~~~~~~~~~~~i~l~i~V~d 381 (403)
T PRK07334 324 GRLARLRVDIRDRPGALARVTALIGEAGANIIEVSHQRLFTDLPAKGAELELVIETRD 381 (403)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEecccCCCCCeEEEEEEEEeCC
Confidence 334889999999999999999999999999999998754 46766778888876
No 80
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=83.03 E-value=10 Score=30.84 Aligned_cols=49 Identities=14% Similarity=0.154 Sum_probs=38.6
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCC
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQS 486 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~ 486 (502)
.+.+..+.+.|.|.++++.+.++++.+++..+.... +...+.|.+.+..
T Consensus 3 sl~~~~~d~~G~L~~il~~f~~~~ini~~i~s~p~~~~~~~~~f~vd~~~ 52 (80)
T cd04905 3 SIVFTLPNKPGALYDVLGVFAERGINLTKIESRPSKGGLWEYVFFIDFEG 52 (80)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCcCEEEEEEEEcCCCCceEEEEEEEEC
Confidence 455666789999999999999999999999877653 3445677777765
No 81
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=82.38 E-value=1.6 Score=43.94 Aligned_cols=52 Identities=37% Similarity=0.402 Sum_probs=43.4
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCC---CCCCChhcHHHHHHHHHHHHHHHHH
Q 010728 356 LNHVEAERQRREKLNQRFYALRAVVPN---ISKMDKASLLGDAITYITDLQMKIR 407 (502)
Q Consensus 356 ~~H~~~ER~RR~kln~~f~~LrslvP~---~~K~dKasiL~~aI~YIk~Lq~~v~ 407 (502)
+.-+..||+|=..||..|..||.+||. ..|..|--.|..|-.||--|-..++
T Consensus 176 ~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~ 230 (285)
T KOG4395|consen 176 LAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLD 230 (285)
T ss_pred cccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhc
Confidence 345567999999999999999999995 4677888889999999988866553
No 82
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=80.15 E-value=6.9 Score=29.34 Aligned_cols=44 Identities=14% Similarity=0.119 Sum_probs=35.5
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEE
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSI 482 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~v 482 (502)
|.|..+.++|.+.++.+.|.+.++.+.+..+...+ +..+..|.+
T Consensus 1 ~~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~~v 45 (56)
T cd04889 1 LSVFVENKPGRLAEVTEILAEAGINIKAISIAETRGEFGILRLIF 45 (56)
T ss_pred CEEEeCCCCChHHHHHHHHHHcCCCEeeEEEEEccCCcEEEEEEE
Confidence 35678899999999999999999999888877765 554455554
No 83
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=79.76 E-value=12 Score=38.56 Aligned_cols=63 Identities=17% Similarity=0.291 Sum_probs=48.3
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe--cCCEEEEEEEEEeCCC-ChHHHHHHHHH
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST--TEDKVIHTFSIQTQSG-ASEQLKEKLLA 498 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~--~~~~v~~~~~vk~~~g-~~~~l~e~L~~ 498 (502)
.+.|.|.|++++|+..+|-+.|-++++.+.+.+..+ .++.+...+.+..+.+ +...+++.|.+
T Consensus 7 ~~vitv~G~DrpGIVa~VT~~La~~~vNI~dls~~~~~~~~~F~m~~~~~~p~~~~~~~L~~~L~~ 72 (286)
T PRK13011 7 TFVLTLSCPSAAGIVAAVTGFLAEHGCYITELHSFDDRLSGRFFMRVEFHSEEGLDEDALRAGFAP 72 (286)
T ss_pred eEEEEEEeCCCCCHHHHHHHHHHhCCCCEEEeeeeecCCCCeEEEEEEEecCCCCCHHHHHHHHHH
Confidence 577999999999999999999999999999999873 4455554555555543 35577776665
No 84
>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases. Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Probab=78.82 E-value=14 Score=30.36 Aligned_cols=75 Identities=15% Similarity=0.237 Sum_probs=45.3
Q ss_pred eCCCCCCCcceeecCCCceEeeCCCCCCCCcchhhhhhhhcCCceEEEeecC-----Cceeeecccc-c---ccCCHHHH
Q 010728 154 FRCDSAYGPGHAYKSGRSIWTSGIVSCSDHYESRSFLAMSAGFQTVVFVPAK-----SGVVELGSVK-L---IPEEQNVV 224 (502)
Q Consensus 154 F~~G~~GlpG~a~~sg~~~Wl~~~~~~~~~~~~R~~lA~saGIqTvvcIPv~-----~GVvELGSt~-~---I~Ed~~lv 224 (502)
|+.+ .++.++++.+++++.+.+..... .+.........|++.++|+|+. -|++.+.+.+ . -.++.+++
T Consensus 52 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~s~~~~Pl~~~~~~~G~l~~~~~~~~~~~~~~~~~~l 128 (149)
T smart00065 52 YPLG-EGLAGRVAETGRPLNIPDVEADP--VFALDLLGRYQGVRSFLAVPLVADGELVGVLALHNKDSPRPFTEEDEELL 128 (149)
T ss_pred ecCC-CChHHHHHHcCCeEEeechhhCC--ccccccccceeceeeEEEeeeeecCEEEEEEEEEecCCCCCCCHHHHHHH
Confidence 3445 66777888888888877554332 2222233334459999999982 3788888762 1 23345556
Q ss_pred HHHHHHh
Q 010728 225 EMVKTVF 231 (502)
Q Consensus 225 ~~vk~~F 231 (502)
+.+...+
T Consensus 129 ~~~~~~i 135 (149)
T smart00065 129 QALANQL 135 (149)
T ss_pred HHHHHHH
Confidence 5554444
No 85
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=76.79 E-value=8 Score=45.01 Aligned_cols=76 Identities=13% Similarity=0.046 Sum_probs=51.6
Q ss_pred eeCCCCCCCcceeecCCCceEeeCCCCCCCCcchhhhhhhhcCCceEEEeecCC-----ceeeecccccccCCHHHHHHH
Q 010728 153 NFRCDSAYGPGHAYKSGRSIWTSGIVSCSDHYESRSFLAMSAGFQTVVFVPAKS-----GVVELGSVKLIPEEQNVVEMV 227 (502)
Q Consensus 153 sF~~G~~GlpG~a~~sg~~~Wl~~~~~~~~~~~~R~~lA~saGIqTvvcIPv~~-----GVvELGSt~~I~Ed~~lv~~v 227 (502)
.|+.| +|+.|+++.+++|+.+.+...-+... .+.. +...++..++|||+.. |||.+.+...-.-+.+-+..+
T Consensus 67 ~l~~g-eGi~G~Va~tg~pV~V~Dv~~dprf~-~~~~-~~~~~~~S~L~VPL~~~geVIGVL~v~~~~~~~Fs~~d~~lL 143 (748)
T PRK11061 67 TLAFD-EGIVGLVGRLAEPINLADAQKHPSFK-YIPS-VKEERFRAFLGVPIIYRRQLLGVLVVQQRELRQFDESEESFL 143 (748)
T ss_pred eccCC-cchHHHHhccCceEEECCcccCcccc-cCcc-ccCccceEEEEEEEeeCCEEEEEEEEeeCCCCCCCHHHHHHH
Confidence 58889 99999999999999998776533211 1111 2246899999999944 788887776644444444444
Q ss_pred HHHh
Q 010728 228 KTVF 231 (502)
Q Consensus 228 k~~F 231 (502)
..+.
T Consensus 144 ~~LA 147 (748)
T PRK11061 144 VTLA 147 (748)
T ss_pred HHHH
Confidence 4433
No 86
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=75.76 E-value=2.8 Score=46.51 Aligned_cols=77 Identities=19% Similarity=0.236 Sum_probs=53.3
Q ss_pred eeCCCCCCCcceeecCCCceEeeCCCCCCCCcchhhhhhhhcCCceEEEeec-----CCceeeeccccc----ccCCHHH
Q 010728 153 NFRCDSAYGPGHAYKSGRSIWTSGIVSCSDHYESRSFLAMSAGFQTVVFVPA-----KSGVVELGSVKL----IPEEQNV 223 (502)
Q Consensus 153 sF~~G~~GlpG~a~~sg~~~Wl~~~~~~~~~~~~R~~lA~saGIqTvvcIPv-----~~GVvELGSt~~----I~Ed~~l 223 (502)
.|..| +|+.|+++.+++|+++.+...-+. +..+.- ....|+++++|||+ .-|||.+.+... -.+|.++
T Consensus 68 ~~~~~-~gi~g~v~~~~~pvii~Dv~~d~~-~~~~~~-~~~~~~~S~l~VPL~~~g~viGvL~v~s~~~~~~ft~~d~~l 144 (534)
T TIGR01817 68 RYRVG-EGAIGQIVATGNSLVVPDVAAEPL-FLDRLS-LYDPGPVPFIGVPIKADSETIGVLAADRDFRSRERLEEEVRF 144 (534)
T ss_pred cccCC-ccHHHHHHhcCCeEEecccccCch-hhhccc-cccCCcceEEEEEEcCCCEEEEEEEEEeccccccccHHHHHH
Confidence 34668 999999999999999987754221 111111 23468999999999 238999998753 3456677
Q ss_pred HHHHHHHhc
Q 010728 224 VEMVKTVFE 232 (502)
Q Consensus 224 v~~vk~~F~ 232 (502)
+..+-....
T Consensus 145 L~~lA~~ia 153 (534)
T TIGR01817 145 LEMVANLIG 153 (534)
T ss_pred HHHHHHHHH
Confidence 766655553
No 87
>TIGR00119 acolac_sm acetolactate synthase, small subunit. acetohydroxyacid synthase is a synonym.
Probab=74.31 E-value=13 Score=35.00 Aligned_cols=47 Identities=19% Similarity=0.166 Sum_probs=37.8
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC--CEEEEEEEEEe
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE--DKVIHTFSIQT 484 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~--~~v~~~~~vk~ 484 (502)
.|.|..++++|.|.+|...|...|+.+.+..+...+ +....++++..
T Consensus 3 ~isI~ven~pGvL~rI~~lf~rrg~NI~Sl~v~~t~~~~~sriti~V~~ 51 (157)
T TIGR00119 3 ILSVLVENEPGVLSRVAGLFTRRGFNIESLTVGPTEDPDLSRMTIVVVG 51 (157)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCceEEEEEEeecCCCCEEEEEEEEEC
Confidence 467888999999999999999999999999988765 34444555543
No 88
>COG3830 ACT domain-containing protein [Signal transduction mechanisms]
Probab=73.66 E-value=6.2 Score=33.92 Aligned_cols=66 Identities=15% Similarity=0.119 Sum_probs=52.3
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCC--CChHHHHHHHHHHhc
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQS--GASEQLKEKLLAALS 501 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~--g~~~~l~e~L~~aLs 501 (502)
.++|.|.-..+.|....|-.+|-++++.+++++-+...+.+-..+.+..+. -+...++++|.++..
T Consensus 3 ~avITV~GkDr~GIva~is~vLAe~~vNIldisQtvm~~~ftm~~lV~~~~~~~d~~~lr~~l~~~~~ 70 (90)
T COG3830 3 RAVITVIGKDRVGIVAAVSRVLAEHGVNILDISQTVMDGFFTMIMLVDISKEVVDFAALRDELAAEGK 70 (90)
T ss_pred eEEEEEEcCCCCchhHHHHHHHHHcCCcEEEHHHHHHhhhceeeeEEcCChHhccHHHHHHHHHHHHH
Confidence 367889999999999999999999999999999999988765555555542 134577887776643
No 89
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=73.00 E-value=13 Score=28.91 Aligned_cols=57 Identities=14% Similarity=0.145 Sum_probs=40.1
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe--cCCEEEEEEEEEeCCCChHHHHHHHH
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST--TEDKVIHTFSIQTQSGASEQLKEKLL 497 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~--~~~~v~~~~~vk~~~g~~~~l~e~L~ 497 (502)
+-+..+.++|.+.++.+.|.+.|+.+.+..+.. .++..+..+.+... ....+.++|.
T Consensus 2 l~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v~~~--~~~~~~~~l~ 60 (73)
T cd04902 2 LVVRNTDRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSVDEP--VPDEVLEELR 60 (73)
T ss_pred EEEEeCCCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEeCCC--CCHHHHHHHH
Confidence 345788999999999999999999998887665 34665555555442 2334555544
No 90
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=72.76 E-value=9.3 Score=37.09 Aligned_cols=62 Identities=10% Similarity=0.070 Sum_probs=48.1
Q ss_pred CceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHH
Q 010728 435 EDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKL 496 (502)
Q Consensus 435 ~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L 496 (502)
..+.|.+.+++|+|++..|-+.|.++|..+..++.+..++.+-..+.+..+......++..|
T Consensus 7 ~~lviTviG~DrpGIVa~vs~~l~~~g~NI~ds~~t~lgg~Fa~i~lvs~~~~~~~~le~~L 68 (190)
T PRK11589 7 HYLVITALGADRPGIVNTITRHVSSCGCNIEDSRLAMLGEEFTFIMLLSGSWNAITLIESTL 68 (190)
T ss_pred cEEEEEEEcCCCChHHHHHHHHHHHcCCCeeehhhHhhCCceEEEEEEeCChhHHHHHHHHH
Confidence 56789999999999999999999999999999999999887655555544332233444443
No 91
>PRK11589 gcvR glycine cleavage system transcriptional repressor; Provisional
Probab=71.65 E-value=41 Score=32.66 Aligned_cols=62 Identities=13% Similarity=0.187 Sum_probs=49.6
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC------CEEEEEEEEEeCCC-ChHHHHHHHHH
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE------DKVIHTFSIQTQSG-ASEQLKEKLLA 498 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~------~~v~~~~~vk~~~g-~~~~l~e~L~~ 498 (502)
..|.|.-++++|++.+|-+.|.+.++.+.+.+.-+.+ ..+...+.+.++.+ ....+++.|.+
T Consensus 96 ~~v~v~G~DrPGIV~~vT~~la~~~iNI~~L~T~~~~a~~~~~~lf~~~~~v~lP~~~~~~~L~~~l~~ 164 (190)
T PRK11589 96 VWVQVEVADSPHLIERFTALFDSHHMNIAELVSRTQPAEGERPAQLHIQITAHSPASQDAANIEQAFKA 164 (190)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHcCCChhheEEeeecCCCCCcccEEEEEEEEcCCCCCHHHHHHHHHH
Confidence 6788899999999999999999999999888877654 26777778888764 35567776654
No 92
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=71.64 E-value=27 Score=33.05 Aligned_cols=47 Identities=19% Similarity=0.090 Sum_probs=37.5
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC--CEEEEEEEEEe
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE--DKVIHTFSIQT 484 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~--~~v~~~~~vk~ 484 (502)
.|.|..++++|.|.+|...|...|+.+.+..+.... +....++++..
T Consensus 4 ~IsV~veN~pGvL~rI~~lf~rrg~NI~Sl~v~~te~~~~sriti~V~~ 52 (161)
T PRK11895 4 TLSVLVENEPGVLSRVAGLFSRRGYNIESLTVGPTEDPGLSRMTIVTSG 52 (161)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCcEEEEEeeecCCCCEEEEEEEEEC
Confidence 477888999999999999999999999999888764 44444555543
No 93
>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe. In PAH, an autoregulatory sequence, N-terminal of the ACT domain, extends across the catalytic domain active site and regulates the enzyme by intrasteric regulation. It appears that the activation by L-Phe induces a conformational change that converts the enzyme to a high-affinity and high-activity state. Modulation of activity is achieved through inhibition by BH4 and activation by phosphorylation of serine residues of the autoregulatory region. The molecular basis for the cooperative activation process is not fully understood yet. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=71.20 E-value=36 Score=29.04 Aligned_cols=52 Identities=15% Similarity=0.128 Sum_probs=40.7
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCCC
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQSG 487 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~g 487 (502)
...|-+..++++|.|.++|..+...|+.+.+..+-... ..--+.|-|.+.+.
T Consensus 14 ktslif~l~~~pGsL~~vL~~Fa~~~INLt~IeSRP~~~~~~~Y~FfVDieg~ 66 (90)
T cd04931 14 VISLIFSLKEEVGALAKVLRLFEEKDINLTHIESRPSRLNKDEYEFFINLDKK 66 (90)
T ss_pred cEEEEEEcCCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEcC
Confidence 35566677889999999999999999999999988753 22346777777653
No 94
>cd04901 ACT_3PGDH C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. The C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In Escherichia coli, the SerA 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. In the homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active site is postulated to involve the tethering of the regulatory domains together to create a rigid quaternary structure with a solvent-
Probab=71.12 E-value=5.4 Score=30.89 Aligned_cols=56 Identities=18% Similarity=0.123 Sum_probs=39.5
Q ss_pred EEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHH
Q 010728 440 RVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLL 497 (502)
Q Consensus 440 ~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~ 497 (502)
-+.+.+++|++.+++..|.+.++.+...+....++..+..+.+..+ ..+.+-++|.
T Consensus 3 ~~~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~~~~~a~~~~~~~~~--~l~~li~~l~ 58 (69)
T cd04901 3 LHIHKNVPGVLGQINTILAEHNINIAAQYLQTRGEIGYVVIDIDSE--VSEELLEALR 58 (69)
T ss_pred EEEecCCCcHHHHHHHHHHHcCCCHHHHhccCCCCEEEEEEEcCCC--CCHHHHHHHH
Confidence 3577889999999999999999999777665554665555665554 2334444444
No 95
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=71.04 E-value=14 Score=38.22 Aligned_cols=64 Identities=13% Similarity=0.214 Sum_probs=45.5
Q ss_pred CceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEE--ecCCEEEEEEEEEe--CCC-ChHHHHHHHHH
Q 010728 435 EDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVS--TTEDKVIHTFSIQT--QSG-ASEQLKEKLLA 498 (502)
Q Consensus 435 ~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s--~~~~~v~~~~~vk~--~~g-~~~~l~e~L~~ 498 (502)
..+.|.|.|+++.|+..+|-..|-+.|+.+++++.. +..+.++.-+.+.. +.+ +...+++.|.+
T Consensus 8 ~~~iitv~G~Dr~GIVA~Vs~~Lae~g~NI~disq~~d~~~~~ffm~i~~~~~~~~~~~~~~l~~~l~~ 76 (289)
T PRK13010 8 PSYVLTLACPSAPGIVAAVSGFLAEKGCYIVELTQFDDDESGRFFMRVSFHAQSAEAASVDTFRQEFQP 76 (289)
T ss_pred cCEEEEEECCCCCCcHHHHHHHHHHCCCCEEecccccccccCcEEEEEEEEcCCCCCCCHHHHHHHHHH
Confidence 356799999999999999999999999999999985 33344444444432 221 34566665554
No 96
>PF13710 ACT_5: ACT domain; PDB: 2FGC_A 2PC6_A 2F1F_B.
Probab=70.45 E-value=19 Score=28.51 Aligned_cols=53 Identities=13% Similarity=0.097 Sum_probs=36.3
Q ss_pred CCCChHHHHHHHHHcCCCeEEEEEEEe--cCCEEEEEEEEEeCCCChHHHHHHHH
Q 010728 445 LDDHPVSSVMKTFSEHQIVAQESNVST--TEDKVIHTFSIQTQSGASEQLKEKLL 497 (502)
Q Consensus 445 ~~~~~l~~im~aL~el~L~V~~a~~s~--~~~~v~~~~~vk~~~g~~~~l~e~L~ 497 (502)
+++|.|.+|+..+.--|+.+.+.++.. .++..-.++++...+...+.+..+|.
T Consensus 1 n~~GvL~Ri~~vf~rRg~nI~sl~v~~~~~~~~~riti~v~~~~~~i~~l~~Ql~ 55 (63)
T PF13710_consen 1 NQPGVLNRITGVFRRRGFNIESLSVGPTEDPGISRITIVVSGDDREIEQLVKQLE 55 (63)
T ss_dssp SSTTHHHHHHHHHHTTT-EECEEEEEE-SSTTEEEEEEEEES-CCHHHHHHHHHH
T ss_pred CCcHHHHHHHHHHhcCCeEEeeEEeeecCCCCEEEEEEEEeeCchhHHHHHHHHh
Confidence 368999999999999999999999988 55665556666543323344444443
No 97
>PRK11152 ilvM acetolactate synthase 2 regulatory subunit; Provisional
Probab=69.99 E-value=26 Score=29.05 Aligned_cols=59 Identities=7% Similarity=0.163 Sum_probs=42.3
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCCCChHHHHHHHH
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQSGASEQLKEKLL 497 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~g~~~~l~e~L~ 497 (502)
.|.+...+++|.|.+++..+.--|+.+.+.++... ++..-.++++. .+...+++..+|.
T Consensus 5 ~lsi~v~n~pGVL~Ri~~lf~rRGfnI~sl~v~~t~~~~~sriti~v~-~~~~i~ql~kQL~ 65 (76)
T PRK11152 5 QLTIKARFRPEVLERVLRVVRHRGFQVCSMNMTQNTDAQNINIELTVA-SERPIDLLSSQLN 65 (76)
T ss_pred EEEEEEECCccHHHHHHHHHhcCCeeeeeEEeeecCCCCEEEEEEEEC-CCchHHHHHHHHh
Confidence 46777889999999999999999999999998874 44444555553 2223345555544
No 98
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=69.98 E-value=2.9 Score=42.41 Aligned_cols=50 Identities=36% Similarity=0.444 Sum_probs=42.9
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCC---CCCCChhcHHHHHHHHHHHHHHH
Q 010728 356 LNHVEAERQRREKLNQRFYALRAVVPN---ISKMDKASLLGDAITYITDLQMK 405 (502)
Q Consensus 356 ~~H~~~ER~RR~kln~~f~~LrslvP~---~~K~dKasiL~~aI~YIk~Lq~~ 405 (502)
..=+..||+|=-.+|+-|..||.++|. ..|+.|.-.|.-|-+||..|++-
T Consensus 74 ~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 74 LKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEV 126 (254)
T ss_pred ccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhccc
Confidence 455677999999999999999999993 57889999999999999988753
No 99
>cd04885 ACT_ThrD-I Tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes each of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=69.96 E-value=27 Score=27.48 Aligned_cols=46 Identities=13% Similarity=0.114 Sum_probs=34.8
Q ss_pred EEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCC
Q 010728 440 RVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQS 486 (502)
Q Consensus 440 ~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~ 486 (502)
+|.-|.++|-|.++++.|.+ +..|...+....+ +.....+.+++++
T Consensus 2 ~v~ipdkPG~l~~~~~~i~~-~~nI~~~~~~~~~~~~~~v~v~ie~~~ 48 (68)
T cd04885 2 AVTFPERPGALKKFLELLGP-PRNITEFHYRNQGGDEARVLVGIQVPD 48 (68)
T ss_pred EEECCCCCCHHHHHHHHhCC-CCcEEEEEEEcCCCCceEEEEEEEeCC
Confidence 56778999999999999999 9999888776532 2233456667765
No 100
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=67.24 E-value=36 Score=27.43 Aligned_cols=48 Identities=10% Similarity=0.097 Sum_probs=38.2
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCC-EEEEEEEEEeCC
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTED-KVIHTFSIQTQS 486 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~-~v~~~~~vk~~~ 486 (502)
|-+..++++|.|.++|..+...++.+.+..+-...+ ..-+.|-+.+.+
T Consensus 3 l~f~l~~~pG~L~~vL~~f~~~~iNlt~IeSRP~~~~~~~y~Ffvd~~~ 51 (74)
T cd04904 3 LIFSLKEEVGALARALKLFEEFGVNLTHIESRPSRRNGSEYEFFVDCEV 51 (74)
T ss_pred EEEEeCCCCcHHHHHHHHHHHCCCcEEEEECCCCCCCCceEEEEEEEEc
Confidence 345557789999999999999999999999887553 345777777765
No 101
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=66.26 E-value=36 Score=28.95 Aligned_cols=48 Identities=15% Similarity=0.233 Sum_probs=38.3
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeC
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQ 485 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~ 485 (502)
.|.+...+++|.|.+|-..+...|+.+.+.++....+-=+.-+++-+.
T Consensus 4 ~isvlVeN~~GVL~Rit~lFsRRg~NI~SLtvg~Te~~~iSRmtivv~ 51 (84)
T PRK13562 4 ILKLQVADQVSTLNRITSAFVRLQYNIDTLHVTHSEQPGISNMEIQVD 51 (84)
T ss_pred EEEEEEECCCCHHHHHHHHHhccCcCeeeEEecccCCCCceEEEEEEe
Confidence 477888899999999999999999999999888765533455555554
No 102
>COG2844 GlnD UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=66.21 E-value=26 Score=41.08 Aligned_cols=61 Identities=20% Similarity=0.256 Sum_probs=51.3
Q ss_pred cccccccCCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCCC
Q 010728 427 EIDFQPRHEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQSG 487 (502)
Q Consensus 427 ~V~V~i~~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~g 487 (502)
.+.++...+...|-|-|+.++.+++.+..++...|++|+.+++-+.. +.++.+|.|.-++|
T Consensus 675 ~~~~r~~~~~teV~V~a~d~p~Lfa~v~~~~~~~g~~i~dAqi~tt~dG~alDtfiv~~~~g 736 (867)
T COG2844 675 LISVRPHSGGTEVFVYAPDRPRLFAVVCAALSRRGLSIVDAQIFTTRDGYALDTFIVLEPDG 736 (867)
T ss_pred eeeecccCCceEEEEEcCCCccHHHHHHHHHccCCCceeeeEEEEccCCceeeeEEEecCCC
Confidence 34455566778899999999999999999999999999999998765 55899998876554
No 103
>cd04892 ACT_AK-like_2 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the second of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). The exception in this group, is the inclusion of the first ACT domain of the bifunctional aspartokinase - homoserine dehydrogenase-like enzyme group (ACT_AKi-HSDH-ThrA-like_1) which includes the monofunctional, threonine-sensitive, aspartokinase found in Methanococcus jannaschii and other related archaeal species. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. AK is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of AK with different repressors an
Probab=65.79 E-value=35 Score=25.10 Aligned_cols=59 Identities=12% Similarity=0.156 Sum_probs=37.4
Q ss_pred EEEEEcc---CCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 438 VVRVSCP---LDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 438 ~I~I~c~---~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
+|.|.+. ...+.+.+++++|.+.++.+.....+.. + .-.+|.+.-. +.+.+.+.|...|
T Consensus 2 ~i~i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~~~~-~-~~i~~~v~~~--~~~~~~~~l~~~~ 63 (65)
T cd04892 2 LVSVVGAGMRGTPGVAARIFSALAEAGINIIMISQGSS-E-VNISFVVDED--DADKAVKALHEEF 63 (65)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCcEEEEEcCCC-c-eeEEEEEeHH--HHHHHHHHHHHHH
Confidence 4566443 4577899999999999999988876552 2 2234555332 3344555565554
No 104
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=64.20 E-value=41 Score=25.49 Aligned_cols=60 Identities=3% Similarity=0.028 Sum_probs=37.9
Q ss_pred EEEEEc---cCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHhc
Q 010728 438 VVRVSC---PLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAALS 501 (502)
Q Consensus 438 ~I~I~c---~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aLs 501 (502)
+|.|.+ +...+.+.+++++|.+.++.|.-.+.+..+. -.+|.+.- .+.+...+.|.++|.
T Consensus 3 ~isvvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~~~~s~~--~is~~v~~--~~~~~~~~~lh~~~~ 65 (66)
T cd04922 3 ILALVGDGMAGTPGVAATFFSALAKANVNIRAIAQGSSER--NISAVIDE--DDATKALRAVHERFF 65 (66)
T ss_pred EEEEECCCCCCCccHHHHHHHHHHHCCCCEEEEEecCccc--EEEEEEeH--HHHHHHHHHHHHHHh
Confidence 355544 3457889999999999999997776544332 23445433 234455666666653
No 105
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=62.32 E-value=43 Score=39.13 Aligned_cols=50 Identities=10% Similarity=0.136 Sum_probs=43.6
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCC
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQS 486 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~ 486 (502)
+.|+|.+.++.|+|.+|..+|.+.++.|.++++... ++.+...|++++++
T Consensus 667 v~I~I~~~Dr~GlL~dIt~~is~~~~nI~~v~~~~~~~~~~~~~~~~ieV~~ 718 (743)
T PRK10872 667 LVVRVTANDRSGLLRDITTILANEKVNVLGVASRSDTKQQLATIDMTIEIYN 718 (743)
T ss_pred EEEEEEEcCCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCCEEEEEEEEEECC
Confidence 568899999999999999999999999999998765 46666788888877
No 106
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=62.20 E-value=55 Score=27.05 Aligned_cols=49 Identities=10% Similarity=0.095 Sum_probs=33.4
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCC
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQS 486 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~ 486 (502)
+.+++|.-|.++|-|.+++++|- +..|......... +.....+.+++++
T Consensus 1 e~vl~v~ipD~PG~L~~ll~~l~--~anI~~~~y~~~~~~~~~v~i~ie~~~ 50 (85)
T cd04906 1 EALLAVTIPERPGSFKKFCELIG--PRNITEFNYRYADEKDAHIFVGVSVAN 50 (85)
T ss_pred CeEEEEecCCCCcHHHHHHHHhC--CCceeEEEEEccCCCeeEEEEEEEeCC
Confidence 35688999999999999999999 5555544443321 3333456677765
No 107
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=62.04 E-value=60 Score=26.99 Aligned_cols=45 Identities=7% Similarity=0.046 Sum_probs=35.5
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC--CEEEEEEEE
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE--DKVIHTFSI 482 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~--~~v~~~~~v 482 (502)
.|.+...+++|.|.+|...+.--|+.+.+.++...+ +..-.++++
T Consensus 4 tisi~v~n~pGVL~Ri~~lf~rRgfNI~Sl~vg~te~~~~sriti~~ 50 (76)
T PRK06737 4 TFSLVIHNDPSVLLRISGIFARRGYYISSLNLNERDTSGVSEMKLTA 50 (76)
T ss_pred EEEEEEecCCCHHHHHHHHHhccCcceEEEEecccCCCCeeEEEEEE
Confidence 467788899999999999999999999998888654 333334444
No 108
>PRK06382 threonine dehydratase; Provisional
Probab=61.80 E-value=32 Score=36.89 Aligned_cols=66 Identities=9% Similarity=0.064 Sum_probs=47.5
Q ss_pred cCCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEE----ec-CCEEEEEEEEEeCCC-ChHHHHHHHHH
Q 010728 433 RHEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVS----TT-EDKVIHTFSIQTQSG-ASEQLKEKLLA 498 (502)
Q Consensus 433 ~~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s----~~-~~~v~~~~~vk~~~g-~~~~l~e~L~~ 498 (502)
.+..+.+.|.-+.++|.|.+|++.|.+.+..|+++... .. .+....+|.++..+- ..+.+.+.|.+
T Consensus 327 ~~~~~rl~v~v~D~pG~L~~l~~ii~~~~~nI~~v~~~~~~~~~~~~~~~v~i~vet~~~~~~~~v~~~L~~ 398 (406)
T PRK06382 327 LGQLVRIECNIPDRPGNLYRIANAIASNGGNIYHAEVDNLRKETPPGFQSVTFTVNVRGQDHLDRILNALRE 398 (406)
T ss_pred cCCEEEEEEEcCCCCCHHHHHHHHHhcCCCcEEEEEEeeccccCCCCcEEEEEEEEeCCHHHHHHHHHHHHH
Confidence 35567788999999999999999999999999988764 22 345556777777631 22355555543
No 109
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=60.24 E-value=55 Score=24.77 Aligned_cols=53 Identities=6% Similarity=0.023 Sum_probs=35.0
Q ss_pred CCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHhc
Q 010728 445 LDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAALS 501 (502)
Q Consensus 445 ~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aLs 501 (502)
..++.+.+++++|.+.++.+.-.+.+..+. -.+|++. ..+.....+.|.++|.
T Consensus 13 ~~~~~~~~i~~~L~~~~i~v~~i~~~~s~~--~isf~v~--~~d~~~~~~~lh~~~~ 65 (66)
T cd04916 13 NTVGVSARATAALAKAGINIRMINQGSSEI--SIMIGVH--NEDADKAVKAIYEEFF 65 (66)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCccc--EEEEEEe--HHHHHHHHHHHHHHHh
Confidence 467889999999999999997776544322 2345553 3234455666666654
No 110
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=59.64 E-value=38 Score=39.18 Aligned_cols=51 Identities=10% Similarity=0.098 Sum_probs=44.3
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-CCEEEEEEEEEeCC
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-EDKVIHTFSIQTQS 486 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-~~~v~~~~~vk~~~ 486 (502)
.+.|+|.+.++.|+|.+|+.+|.+.++.+.++++... ++.+...|++++++
T Consensus 610 ~v~I~I~~~dr~GlLadI~~~ia~~~~nI~~v~~~~~~~~~~~~~~~ieV~~ 661 (683)
T TIGR00691 610 IVDINIEAVDRKGVLSDLTTAISENDSNIVSISTKTYGKREAILNITVEIKN 661 (683)
T ss_pred EEEEEEEEecCCCHHHHHHHHHHHCCCCeEEEEeEEcCCCEEEEEEEEEECC
Confidence 3568899999999999999999999999999998876 46666778888876
No 111
>cd04929 ACT_TPH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxytryptamine (serotonin) and the first reaction in the synthesis of melatonin. Very little is known about the role of the ACT domain in TPH, which appears to be regulated by phosphorylation but not by its substrate or cofactor. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=58.43 E-value=80 Score=25.79 Aligned_cols=46 Identities=11% Similarity=0.079 Sum_probs=36.9
Q ss_pred EEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCC
Q 010728 441 VSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQS 486 (502)
Q Consensus 441 I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~ 486 (502)
+..++++|.|.++|..++..++.+.+..+-... ..--+.|-|.+.+
T Consensus 5 ~~l~~~~g~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y~F~id~e~ 51 (74)
T cd04929 5 FSLKNEVGGLAKALKLFQELGINVVHIESRKSKRRSSEFEIFVDCEC 51 (74)
T ss_pred EEcCCCCcHHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEc
Confidence 445778999999999999999999999987743 3345788888865
No 112
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=58.29 E-value=41 Score=39.06 Aligned_cols=51 Identities=8% Similarity=0.037 Sum_probs=43.9
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCC
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQS 486 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~ 486 (502)
.+.|+|.+.++.|+|.+|+.+|.+.++.+.++++...+ +.+...|++++.+
T Consensus 626 ~v~i~I~~~dr~GlL~dI~~~i~~~~~nI~~v~~~~~~~~~~~~~~~ieV~~ 677 (702)
T PRK11092 626 IAEIKVEMFNHQGALANLTAAINTTGSNIQSLNTEEKDGRVYSAFIRLTARD 677 (702)
T ss_pred EEEEEEEEeCCCCHHHHHHHHHHHCCCCeEEEEEEEcCCCEEEEEEEEEECC
Confidence 35688999999999999999999999999999987764 4666778888876
No 113
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=54.39 E-value=38 Score=34.80 Aligned_cols=64 Identities=20% Similarity=0.294 Sum_probs=46.7
Q ss_pred CceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 435 EDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 435 ~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
....+.++|+.+.|+...|-.-|-+.|..+++++-... .++++.-......++ ...++.|++++
T Consensus 6 ~~~~LtvsCpd~~GiVaais~~l~~~g~NI~~~~qf~D~~~g~FFmR~~f~~~~~--~~~~~~l~~~f 71 (287)
T COG0788 6 DTFILTVSCPDQPGIVAAISGFLAEHGCNIVDSDQFDDPETGRFFMRVEFEGEGG--PLDREALRAAF 71 (287)
T ss_pred cceEEEEecCCCCCcHHHHHHHHHHcCCceeecccccccccCeEEEEEEEecCCC--cccHHHHHHHH
Confidence 35678999999999999999999999999999887742 356666666655443 13444444443
No 114
>PRK08198 threonine dehydratase; Provisional
Probab=54.02 E-value=81 Score=33.68 Aligned_cols=53 Identities=11% Similarity=0.122 Sum_probs=42.4
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe-----cCCEEEEEEEEEeCC
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST-----TEDKVIHTFSIQTQS 486 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~-----~~~~v~~~~~vk~~~ 486 (502)
+..+.+.|.-+.++|.|.++++.|.+.|..|..++... ..+.+...+.+++.+
T Consensus 325 gr~~~l~v~l~D~PG~L~~ll~~i~~~g~NI~~i~~~~~~~~~~~~~~~v~v~ie~~~ 382 (404)
T PRK08198 325 GRYLKLRVRLPDRPGQLAKLLSIIAELGANVIDVDHDRFSPDLRLGEVEVELTLETRG 382 (404)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhhCCCceEEEEEEEccCCCCCceEEEEEEEEeCC
Confidence 55678999999999999999999999999998887764 234566677777743
No 115
>CHL00100 ilvH acetohydroxyacid synthase small subunit
Probab=53.82 E-value=50 Score=31.72 Aligned_cols=61 Identities=16% Similarity=0.214 Sum_probs=42.7
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCC--ChHHHHHHHHH
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSG--ASEQLKEKLLA 498 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g--~~~~l~e~L~~ 498 (502)
.|.|...+++|.|.+|...|...|+.+.+.++....+.=+..+++-++++ ..++++++|..
T Consensus 4 ~isvlv~n~PGVL~RIt~lFsrRg~NIesLsv~~t~~~~~sr~TIvv~~~~~~ieqL~kQL~K 66 (174)
T CHL00100 4 TLSVLVEDESGVLTRIAGLFARRGFNIESLAVGPAEQKGISRITMVVPGDDRTIEQLTKQLYK 66 (174)
T ss_pred EEEEEEeCcCCHHHHHHHHHHhCCCCeeEEEeeEcCCCCccEEEEEEECCHHHHHHHHHHHHH
Confidence 47788899999999999999999999999998763322233555555542 13355555543
No 116
>TIGR01127 ilvA_1Cterm threonine dehydratase, medium form. A form of threonine dehydratase with two copies of the C-terminal domain Pfam:PF00585 is described by TIGR01124. This model describes a phylogenetically distinct form with a single copy of pfam00585. This form branches with the catabolic threonine dehydratase of E. coli; many members are designated as catabolic for this reason. However, the catabolic form lacks any pfam00585 domain. Many members of this model are found in species with other Ile biosynthetic enzymes.
Probab=52.96 E-value=87 Score=33.07 Aligned_cols=53 Identities=6% Similarity=0.105 Sum_probs=41.8
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe-----cCCEEEEEEEEEeCC
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST-----TEDKVIHTFSIQTQS 486 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~-----~~~~v~~~~~vk~~~ 486 (502)
+..+.+.|.-+.++|.|.++++.+.+.+..|++..... ..+.....+.+++++
T Consensus 303 gr~~~l~v~l~D~pG~L~~v~~~i~~~~~NI~~i~~~r~~~~~~~~~~~v~v~vet~~ 360 (380)
T TIGR01127 303 GRKVRIETVLPDRPGALYHLLESIAEARANIVKIDHDRLSKEIPPGFAMVEITLETRG 360 (380)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhcCCCcEEEEEeeccccCCCCceEEEEEEEEeCC
Confidence 45568899999999999999999999999999886652 124556677777754
No 117
>cd04919 ACT_AK-Hom3_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=52.74 E-value=83 Score=23.92 Aligned_cols=52 Identities=12% Similarity=0.064 Sum_probs=33.2
Q ss_pred CCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 445 LDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 445 ~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
.+.+.+.+++++|.+.++++.-...+..+.. ..|.+. ..+.....+.|.+.|
T Consensus 13 ~~~~~~~~if~~L~~~~I~v~~i~q~~s~~~--isf~v~--~~~~~~a~~~lh~~~ 64 (66)
T cd04919 13 NMIGIAGRMFTTLADHRINIEMISQGASEIN--ISCVID--EKDAVKALNIIHTNL 64 (66)
T ss_pred CCcCHHHHHHHHHHHCCCCEEEEEecCccce--EEEEEe--HHHHHHHHHHHHHHH
Confidence 4578899999999999999977765553322 244443 323344455555554
No 118
>cd04924 ACT_AK-Arch_2 ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). Included in this CD is the second of two ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). The first or N-terminal ACT domain of these proteins cluster with the ThrA-like ACT 1 domains (ACT_AKi-HSDH-ThrA-like_1) which includes the threonine-sensitive archaeal Methanococcus jannaschii aspartokinase ACT 1 domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=51.17 E-value=88 Score=23.52 Aligned_cols=53 Identities=8% Similarity=0.024 Sum_probs=35.5
Q ss_pred CCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHhc
Q 010728 445 LDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAALS 501 (502)
Q Consensus 445 ~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aLs 501 (502)
...+.+.+++++|.+.++.+.-.+.+..+.. .+|.+.-. +.+...+.|.+.|.
T Consensus 13 ~~~~~~~~i~~~L~~~~I~v~~i~q~~s~~~--isf~i~~~--~~~~~~~~Lh~~~~ 65 (66)
T cd04924 13 GTPGVAGRVFGALGKAGINVIMISQGSSEYN--ISFVVAED--DGWAAVKAVHDEFG 65 (66)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEecCccce--EEEEEeHH--HHHHHHHHHHHHhc
Confidence 4578899999999999999977765443322 34555332 34566777777664
No 119
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=51.10 E-value=20 Score=31.21 Aligned_cols=60 Identities=25% Similarity=0.289 Sum_probs=43.0
Q ss_pred CCCCCCCcceeecCCCceEeeCCCCCCCCcc--------------hhhhhhhhcCCceEEEeec-----CCceeeecccc
Q 010728 155 RCDSAYGPGHAYKSGRSIWTSGIVSCSDHYE--------------SRSFLAMSAGFQTVVFVPA-----KSGVVELGSVK 215 (502)
Q Consensus 155 ~~G~~GlpG~a~~sg~~~Wl~~~~~~~~~~~--------------~R~~lA~saGIqTvvcIPv-----~~GVvELGSt~ 215 (502)
..+ .+..|+++.+++++.+.+....+.... .+..++ ..|+++++|+|+ .-|||.|.++.
T Consensus 53 ~~~-~~~~~~~~~~~~~~~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~s~l~vPi~~~g~~~G~l~l~~~~ 130 (154)
T PF01590_consen 53 SMD-ESICGQVLQSREPIVISDVAADPRFAPQIAAQSALRALSSAERPFLA-EYGVRSYLCVPIISGGRLIGVLSLYRTR 130 (154)
T ss_dssp ETT-SSHHHHHHHHTSCEEESSSGGSTTSSCHHHHHHTTBTTTHHHHHHHH-TTTESEEEEEEEEETTEEEEEEEEEEES
T ss_pred ccc-ccHHHHHHhCCCeEeeccccccccccccccccccccccccccccccc-cccCceeeEeeeecccCcEEEEEEEECC
Confidence 445 678999999999999987755332211 111222 579999999999 23899999888
Q ss_pred c
Q 010728 216 L 216 (502)
Q Consensus 216 ~ 216 (502)
.
T Consensus 131 ~ 131 (154)
T PF01590_consen 131 P 131 (154)
T ss_dssp S
T ss_pred C
Confidence 7
No 120
>COG4492 PheB ACT domain-containing protein [General function prediction only]
Probab=50.83 E-value=81 Score=29.27 Aligned_cols=53 Identities=17% Similarity=0.122 Sum_probs=43.4
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEE-ecCCEEEEEEEEEeCC
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVS-TTEDKVIHTFSIQTQS 486 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s-~~~~~v~~~~~vk~~~ 486 (502)
+..+.+.+.-..+.|.|+++++++...++.|.+.+-+ ..+++.-.++.+....
T Consensus 70 ~ri~TL~l~ledr~G~LS~vLd~iA~~~~nvLTI~Q~ipl~g~Anvtlsi~~ss 123 (150)
T COG4492 70 ERIITLSLSLEDRVGILSDVLDVIAREEINVLTIHQTIPLQGRANVTLSIDTSS 123 (150)
T ss_pred ceEEEEEEEEhhhhhhHHHHHHHHHHhCCcEEEEecccccCceeeEEEEEEchh
Confidence 3456677888999999999999999999999998876 4667777777777653
No 121
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=49.31 E-value=80 Score=36.71 Aligned_cols=65 Identities=6% Similarity=0.059 Sum_probs=52.5
Q ss_pred ceEEEEE-ccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCC---ChHHHHHHHHHHhc
Q 010728 436 DAVVRVS-CPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSG---ASEQLKEKLLAALS 501 (502)
Q Consensus 436 ~~~I~I~-c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g---~~~~l~e~L~~aLs 501 (502)
+-.+.|. ++.+.|.++++...|--.++.|+++++.+ ++..+..|.|...-| +...+.+.+..++.
T Consensus 546 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~a~~~~-~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~ 614 (693)
T PRK00227 546 DGFFTVIWHGDYPRELVRVLALIAAKGWNILSARMVA-NGPWSAEFDVRANGPQDFDPQEFLQAYKSGVY 614 (693)
T ss_pred CCeEEEEecCCcccHHHHHHHHHHhcCceeeEeEEec-CCceEEEEEEecCCCCCCChHHHHHHHHHhhc
Confidence 3445554 59999999999999999999999999999 677788999987654 45577888877663
No 122
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=48.69 E-value=94 Score=23.49 Aligned_cols=50 Identities=16% Similarity=0.161 Sum_probs=32.1
Q ss_pred CCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 445 LDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 445 ~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
.+.+...+|+++|.+.++.|.....+. +. .+|.+.... .+..-++|.+.|
T Consensus 12 ~~~~~~~~if~~l~~~~i~v~~i~t~~--~~--is~~v~~~~--~~~~~~~l~~~l 61 (62)
T cd04890 12 GEVGFLRKIFEILEKHGISVDLIPTSE--NS--VTLYLDDSL--LPKKLKRLLAEL 61 (62)
T ss_pred cccCHHHHHHHHHHHcCCeEEEEecCC--CE--EEEEEehhh--hhHHHHHHHHhh
Confidence 457789999999999999999885422 33 355554433 123344455444
No 123
>PF05088 Bac_GDH: Bacterial NAD-glutamate dehydrogenase
Probab=47.40 E-value=85 Score=39.69 Aligned_cols=67 Identities=16% Similarity=0.295 Sum_probs=52.8
Q ss_pred CceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-----CCEEEEEEEEEeCCCC---hHHHHHHHHHHhc
Q 010728 435 EDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-----EDKVIHTFSIQTQSGA---SEQLKEKLLAALS 501 (502)
Q Consensus 435 ~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-----~~~v~~~~~vk~~~g~---~~~l~e~L~~aLs 501 (502)
+.+.++|..+.+..+|+++|-.|+++||.|+.-.--.. ....+|.|.+....+. ...+++.+.++|.
T Consensus 488 ~~~~lkiy~~~~~~~Ls~vlPilenlGl~V~~e~~~~i~~~~~~~~~i~~F~l~~~~~~~~~~~~~~~~~~~a~~ 562 (1528)
T PF05088_consen 488 GRLRLKIYHPGEPLPLSDVLPILENLGLRVIDERPYEIRRADGRRVWIHDFGLQYPDGDALDLDDIRERFEEAFE 562 (1528)
T ss_pred CeEEEEEEcCCCCcCHHHHHHHHHhCCCEEEEEecceeecCCCceEEEEEEEEecCCCccccHHHHHHHHHHHHH
Confidence 45788998888999999999999999999998764432 2468999999998753 4567777776653
No 124
>cd04930 ACT_TH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines (dopamine, noradrenaline and adrenaline), functioning as hormones and neurotransmitters. The enzyme is not regulated by its amino acid substrate, but instead by phosphorylation at several serine residues located N-terminal of the ACT domain, and by feedback inhibition by catecholamines at the active site. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=46.26 E-value=1.1e+02 Score=27.19 Aligned_cols=50 Identities=10% Similarity=0.054 Sum_probs=39.2
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCC-EEEEEEEEEeCC
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTED-KVIHTFSIQTQS 486 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~-~v~~~~~vk~~~ 486 (502)
+.+-+..++++|.|.++|..+...|+.+.+..+-...+ .--+.|-|.+.+
T Consensus 42 tSlifsl~~~pGsL~~iL~~Fa~~gINLt~IESRP~~~~~~eY~FfIdieg 92 (115)
T cd04930 42 ATLLFSLKEGFSSLSRILKVFETFEAKIHHLESRPSRKEGGDLEVLVRCEV 92 (115)
T ss_pred EEEEEEeCCCCcHHHHHHHHHHHCCCCEEEEECCcCCCCCceEEEEEEEEe
Confidence 45556668899999999999999999999999887532 234677777765
No 125
>PRK08526 threonine dehydratase; Provisional
Probab=44.63 E-value=1.3e+02 Score=32.52 Aligned_cols=53 Identities=6% Similarity=0.065 Sum_probs=43.4
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-----CEEEEEEEEEeCC
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-----DKVIHTFSIQTQS 486 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-----~~v~~~~~vk~~~ 486 (502)
+..+.+.+.-+.++|.|.++++.+-+.+.+|..+...... +.+...+.+++++
T Consensus 324 ~r~~~~~~~~~d~pg~l~~~~~~~~~~~~~i~~~~~~r~~~~~~~~~~~~~~~~e~~~ 381 (403)
T PRK08526 324 YRKMKLHVTLVDKPGALMGLTDILKEANANIVKIDYDRFSTKLDYGDAMISITLETKG 381 (403)
T ss_pred CCEEEEEEEcCCCCCHHHHHHHHHccCCCcEEEEEEEeccCCCCCccEEEEEEEEeCC
Confidence 5678899999999999999999999999999988875422 3355677888876
No 126
>PRK08178 acetolactate synthase 1 regulatory subunit; Reviewed
Probab=43.47 E-value=1.8e+02 Score=25.43 Aligned_cols=64 Identities=9% Similarity=0.127 Sum_probs=43.6
Q ss_pred CceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHhc
Q 010728 435 EDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAALS 501 (502)
Q Consensus 435 ~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aLs 501 (502)
+...|.+-..+++|.|.+|...+..-|+.+.+.++...++.-+.-+++-+.+ + ..-++|...|.
T Consensus 7 ~~~tisvlv~N~pGVL~RIaglFsRRgyNIeSLtvg~te~~~iSRmtivv~~-~--~~i~Qi~kQL~ 70 (96)
T PRK08178 7 DNVILELTVRNHPGVMSHVCGLFARRAFNVEGILCLPIQDGDKSRIWLLVND-D--QRLEQMISQIE 70 (96)
T ss_pred CCEEEEEEEECCcCHHHHHHHHHhcCCcCeeeEEEeecCCCCceEEEEEEcC-c--hHHHHHHHHHh
Confidence 4466888899999999999999999999988888876554333444444432 2 34444444443
No 127
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=42.97 E-value=6.4 Score=44.85 Aligned_cols=62 Identities=24% Similarity=0.384 Sum_probs=51.5
Q ss_pred CCccccHHHHHHHHHHHHHHHHHhhcCCCC-----CCCChhcHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010728 354 EPLNHVEAERQRREKLNQRFYALRAVVPNI-----SKMDKASLLGDAITYITDLQMKIRVLETEKDM 415 (502)
Q Consensus 354 ~~~~H~~~ER~RR~kln~~f~~LrslvP~~-----~K~dKasiL~~aI~YIk~Lq~~v~~Le~~~~~ 415 (502)
.+..|.-+|.+||..++-.|..|.+++-+. .|+.+..-+..+++||..++.....+.++-..
T Consensus 651 r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~~ 717 (856)
T KOG3582|consen 651 RPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAHS 717 (856)
T ss_pred CcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhhh
Confidence 468999999999999999999999999753 46777778999999999998877776655433
No 128
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=42.71 E-value=26 Score=24.42 Aligned_cols=17 Identities=41% Similarity=0.669 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHhh
Q 010728 362 ERQRREKLNQRFYALRA 378 (502)
Q Consensus 362 ER~RR~kln~~f~~Lrs 378 (502)
=|+||+.++.++..||.
T Consensus 13 Lrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 13 LRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 38899999999999984
No 129
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=39.32 E-value=29 Score=38.38 Aligned_cols=78 Identities=9% Similarity=0.056 Sum_probs=53.0
Q ss_pred eeCCCCCC-CcceeecCCCceEeeCCCCCCCCcchhhh--hhhhcCCceEEEeec-----CCceeeeccccc---ccCCH
Q 010728 153 NFRCDSAY-GPGHAYKSGRSIWTSGIVSCSDHYESRSF--LAMSAGFQTVVFVPA-----KSGVVELGSVKL---IPEEQ 221 (502)
Q Consensus 153 sF~~G~~G-lpG~a~~sg~~~Wl~~~~~~~~~~~~R~~--lA~saGIqTvvcIPv-----~~GVvELGSt~~---I~Ed~ 221 (502)
.|..| +| ..|.++.+|.++.+.+....+. .+.|.. .+...||..++|||+ .-|||-+.+... -.+|.
T Consensus 65 ~~~~g-eGP~l~av~~~g~~v~v~~~~~~p~-~~~~~~~~~~~~~gi~S~l~vPL~~~~~~~GvL~l~~~~~~~f~~~~~ 142 (509)
T PRK05022 65 RFALE-EHPRLEAILRAGDPVRFPADSELPD-PYDGLIPGVQESLPVHDCMGLPLFVDGRLIGALTLDALDPGQFDAFSD 142 (509)
T ss_pred ccCCC-cchHHHHHHhcCCeEEEecCCCCCc-ccccccccccccCCcceEEEEEEEECCEEEEEEEEeeCCCCcCCHHHH
Confidence 56778 88 6799988899998875543322 233321 133458999999999 348999988653 34456
Q ss_pred HHHHHHHHHhc
Q 010728 222 NVVEMVKTVFE 232 (502)
Q Consensus 222 ~lv~~vk~~F~ 232 (502)
.++..+-+.+.
T Consensus 143 ~~l~~~a~~~a 153 (509)
T PRK05022 143 EELRALAALAA 153 (509)
T ss_pred HHHHHHHHHHH
Confidence 77777766654
No 130
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=38.96 E-value=1.6e+02 Score=23.55 Aligned_cols=26 Identities=12% Similarity=0.133 Sum_probs=22.2
Q ss_pred cCCCChHHHHHHHHHcCCCeEEEEEE
Q 010728 444 PLDDHPVSSVMKTFSEHQIVAQESNV 469 (502)
Q Consensus 444 ~~~~~~l~~im~aL~el~L~V~~a~~ 469 (502)
....+.+.+++++|.+.++.|.....
T Consensus 12 ~~~~g~~~~if~~L~~~~I~v~~i~~ 37 (75)
T cd04912 12 LGAHGFLAKVFEIFAKHGLSVDLIST 37 (75)
T ss_pred CCCccHHHHHHHHHHHcCCeEEEEEc
Confidence 44678899999999999999987753
No 131
>cd04932 ACT_AKiii-LysC-EC_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=38.55 E-value=2.1e+02 Score=23.16 Aligned_cols=59 Identities=15% Similarity=0.217 Sum_probs=37.0
Q ss_pred EEEEE---ccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCC-hHHHHHHHHHHh
Q 010728 438 VVRVS---CPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGA-SEQLKEKLLAAL 500 (502)
Q Consensus 438 ~I~I~---c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~-~~~l~e~L~~aL 500 (502)
+|.|. .+...+.+.+|+++|.+.++.|-....+. +. .+|++.-.+-. .+.++..|.+-|
T Consensus 3 ~ItI~~~~~~~~~g~~~~IF~~La~~~I~VDmI~~s~--~~--iSftv~~~d~~~~~~~~~~l~~~l 65 (75)
T cd04932 3 LVTLKSPNMLHAQGFLAKVFGILAKHNISVDLITTSE--IS--VALTLDNTGSTSDQLLTQALLKEL 65 (75)
T ss_pred EEEEecCCCCCCcCHHHHHHHHHHHcCCcEEEEeecC--CE--EEEEEeccccchhHHHHHHHHHHH
Confidence 45552 45678899999999999999998886422 33 36666544311 123444454444
No 132
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=38.27 E-value=1.1e+02 Score=35.15 Aligned_cols=73 Identities=12% Similarity=0.105 Sum_probs=46.0
Q ss_pred CCCcceeecCCCceEeeCCCCCCCCcchhhhhh-hhcCCceEEEeec--C---Cceeeeccccc---ccCCHHHHHHHHH
Q 010728 159 AYGPGHAYKSGRSIWTSGIVSCSDHYESRSFLA-MSAGFQTVVFVPA--K---SGVVELGSVKL---IPEEQNVVEMVKT 229 (502)
Q Consensus 159 ~GlpG~a~~sg~~~Wl~~~~~~~~~~~~R~~lA-~saGIqTvvcIPv--~---~GVvELGSt~~---I~Ed~~lv~~vk~ 229 (502)
.|+.|+++.+++|+=+.+...-+...+.+.... ...++++++|||. . -|||.+++... -.+|..+++.|-.
T Consensus 256 ~~l~g~V~~~~~p~lv~~~~~d~~~~~~~~~~~~~~~~~~s~l~vPL~~~~~v~GvL~l~~~~~~~F~~~dl~lL~~iA~ 335 (686)
T PRK15429 256 GTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEKVFTTTNLKLLRQIAE 335 (686)
T ss_pred cchHHHHHhcCceEEEECccCcccchhhhhhhhcccccceEEEEEeEEECCEEEEEEEEeeCCCCcCCHHHHHHHHHHHH
Confidence 589999999999998754432222222222211 2357999999998 2 39999976542 2346666666554
Q ss_pred Hh
Q 010728 230 VF 231 (502)
Q Consensus 230 ~F 231 (502)
..
T Consensus 336 ~~ 337 (686)
T PRK15429 336 RV 337 (686)
T ss_pred HH
Confidence 44
No 133
>PRK15385 magnesium transport protein MgtC; Provisional
Probab=37.16 E-value=2.2e+02 Score=28.61 Aligned_cols=65 Identities=11% Similarity=0.176 Sum_probs=43.5
Q ss_pred ceEEEEEccCCCC--hHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCCCChHHHHHHHHHHhc
Q 010728 436 DAVVRVSCPLDDH--PVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQSGASEQLKEKLLAALS 501 (502)
Q Consensus 436 ~~~I~I~c~~~~~--~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~g~~~~l~e~L~~aLs 501 (502)
...++|.|..+.. ....+++.|++.++.+.+.++... ++.+..++.+.+.. .....-+++...|+
T Consensus 142 ~~~~~v~~~~~~~~~vr~~L~~~l~~~~~~~~~l~~~~~~~~~~~ei~a~l~~~~-~~~~~le~iv~~L~ 210 (225)
T PRK15385 142 RYILKVTCNKEDESAVRQWLLNIVKEAAICLQGLGSVPAQEQGYKEIRAELVGHA-DYRKTRELIISRIG 210 (225)
T ss_pred EEEEEEEEcCcchhHHHHHHHHHHHhCCCceEEeEeeecCCCCeEEEEEEEEecC-CchhhHHHHHHHHh
Confidence 4567888977654 578888999999999999999654 34444555555543 22344555555554
No 134
>cd04936 ACT_AKii-LysC-BS-like_2 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis strain 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive AK isoenzymes. The B. subtilis strain 168 AKII is induced by methionine and repressed and inhibited by lysine. Although C. glutamicum is known to contain a single AK, both the succinylase and dehydrogenase variant pathways of DAP-lysine synthesis operate simultaneously in this organism. In corynebacteria and other various Gram-positive bacteria, the DAP-lysine pathway is feedback regu
Probab=36.43 E-value=1.7e+02 Score=21.58 Aligned_cols=50 Identities=18% Similarity=0.147 Sum_probs=32.5
Q ss_pred CCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 445 LDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 445 ~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
...+.+.+++++|.+.++.|...+.+ +.. .+|.+. ..+.+.+.+.|.+.|
T Consensus 12 ~~~~~~~~i~~~L~~~~i~v~~i~~s--~~~--is~~v~--~~d~~~~~~~l~~~~ 61 (63)
T cd04936 12 SHPGVAAKMFEALAEAGINIEMISTS--EIK--ISCLID--EDDAEKAVRALHEAF 61 (63)
T ss_pred CCccHHHHHHHHHHHCCCcEEEEEcc--Cce--EEEEEe--HHHHHHHHHHHHHHh
Confidence 45788999999999999999887743 222 245553 323344555555554
No 135
>cd04923 ACT_AK-LysC-DapG-like_2 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, as well as, the second and fourth, of four, ACT domains present in cyanobacteria AK. Also included are the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (B. subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=35.86 E-value=1.7e+02 Score=21.53 Aligned_cols=50 Identities=18% Similarity=0.152 Sum_probs=32.2
Q ss_pred CCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 445 LDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 445 ~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
..++.+.+++++|.+.++.+...+.+ +.. .+|.+.- .+.......|.+.|
T Consensus 12 ~~~~~~~~i~~~L~~~~i~v~~i~~s--~~~--is~~v~~--~~~~~~~~~l~~~l 61 (63)
T cd04923 12 SHPGVAAKMFKALAEAGINIEMISTS--EIK--ISCLVDE--DDAEKAVRALHEAF 61 (63)
T ss_pred CCccHHHHHHHHHHHCCCCEEEEEcc--CCe--EEEEEeH--HHHHHHHHHHHHHh
Confidence 45678999999999999999887743 222 2455432 23344555555554
No 136
>PF02120 Flg_hook: Flagellar hook-length control protein FliK; InterPro: IPR021136 This entry represents the C-terminal domain of the flagellar hook-length control protein FliK. This entry also includes YscP of the Yersinia type III secretion system, and equivalent proteins in other pathogenic bacterial type III secretion systems. During flagellar morphogenesis in Salmonella typhimurium and Escherichia coli, flagellar hook-length control protein (FliK) controls the length of the hook by directly measuring the hook length [, ]. It is considered unlikely that FliK functions as a molecular ruler for determining hook length, but that it is more likely to be employing a novel mechanism. The deduced amino acid sequences of FliK proteins from S. typhimurium and E. coli have molecular masses of 41,748 and 39,246 Da, respectively, and are fairly hydrophilic []. Sequence comparison reveals around 50% identity, with greatest conservation in the C-terminal region, with 71% identity in the last 154 amino acids - mutagenesis of this conserved region completely abolishes motility. The central and C-terminal regions are rich in proline and glutamine respectively; it is thought that they may constitute distinct domains [].; PDB: 2RRL_A.
Probab=35.68 E-value=66 Score=26.12 Aligned_cols=49 Identities=8% Similarity=0.133 Sum_probs=35.3
Q ss_pred CCcccccccCCceEEEEEccCCCC------hHHHHHHHHHcCCCeEEEEEEEecC
Q 010728 425 VPEIDFQPRHEDAVVRVSCPLDDH------PVSSVMKTFSEHQIVAQESNVSTTE 473 (502)
Q Consensus 425 ~~~V~V~i~~~~~~I~I~c~~~~~------~l~~im~aL~el~L~V~~a~~s~~~ 473 (502)
...|.+...++.+.|++.+....- -+..+-++|...|+.+.+.+++..+
T Consensus 26 ~v~v~l~~~~~~l~v~~~~~~~~~~~~L~~~~~~L~~~L~~~G~~~~~~~v~~~~ 80 (85)
T PF02120_consen 26 SVEVKLRLQGGNLSVQFTAENPETKELLRQNLPELKERLQAQGLEVVNLSVSQGS 80 (85)
T ss_dssp -EEEEEEEETTEEEEEEE--SSHHHHHHHHTHHHHHHHHHTTT-EEEEEEEESS-
T ss_pred cEEEEEEEeCCEEEEEEEECCHHHHHHHHHHHHHHHHHHHHCCCCeEEEEEEECC
Confidence 446777778888899998876532 3788899999999999998887643
No 137
>cd04868 ACT_AK-like ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes each of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). Typically, AK consists of two ACT domains in a tandem repeat, but the second ACT domain is inserted within the first, resulting in, what is normally the terminal beta strand of ACT2, formed from a region N-terminal of ACT1. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Aspartokinase is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of aspartokinase with different repressors and allosteric inhibitors. Pairs of ACT domains are proposed to specifically bind am
Probab=35.53 E-value=1.5e+02 Score=20.99 Aligned_cols=36 Identities=14% Similarity=0.215 Sum_probs=26.3
Q ss_pred CCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEE
Q 010728 446 DDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQ 483 (502)
Q Consensus 446 ~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk 483 (502)
..+.+.+++++|.+.++.+.....+..+.. .+|.+.
T Consensus 13 ~~~~~~~i~~~l~~~~i~i~~i~~~~~~~~--~s~~v~ 48 (60)
T cd04868 13 TPGVAAKIFSALAEAGINVDMISQSESEVN--ISFTVD 48 (60)
T ss_pred CCCHHHHHHHHHHHCCCcEEEEEcCCCcEE--EEEEEe
Confidence 567899999999999999988776544222 345553
No 138
>cd04921 ACT_AKi-HSDH-ThrA-like_1 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the first of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pat
Probab=34.69 E-value=1.8e+02 Score=23.00 Aligned_cols=53 Identities=9% Similarity=0.095 Sum_probs=33.3
Q ss_pred cCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 444 PLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 444 ~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
....+.+.+++++|.+.++.+...+.+..+.. .+|++.-. +...+.+.|.+.|
T Consensus 12 ~~~~~~~~~i~~~L~~~~I~v~~i~~~~~~~~--isf~v~~~--d~~~~~~~l~~~~ 64 (80)
T cd04921 12 VGVPGIAARIFSALARAGINVILISQASSEHS--ISFVVDES--DADKALEALEEEF 64 (80)
T ss_pred CCCccHHHHHHHHHHHCCCcEEEEEecCCcce--EEEEEeHH--HHHHHHHHHHHHH
Confidence 34677899999999999999987776543322 34555332 2334444444443
No 139
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=33.73 E-value=1e+02 Score=31.31 Aligned_cols=18 Identities=22% Similarity=0.366 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 010728 399 ITDLQMKIRVLETEKDMS 416 (502)
Q Consensus 399 Ik~Lq~~v~~Le~~~~~l 416 (502)
||.++.||++||.++...
T Consensus 57 L~~a~~ri~eLe~ql~q~ 74 (247)
T PF09849_consen 57 LKQAQARIQELEAQLQQA 74 (247)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 788999999999987543
No 140
>COG0317 SpoT Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]
Probab=33.28 E-value=1.5e+02 Score=34.55 Aligned_cols=51 Identities=10% Similarity=0.152 Sum_probs=42.9
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec-CCEEEEEEEEEeCC
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT-EDKVIHTFSIQTQS 486 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~-~~~v~~~~~vk~~~ 486 (502)
.+.|+|.-.+++|+|.+|+++|-+.+..|.++++... ++.....|++++.+
T Consensus 627 ~~~i~v~~~~r~glL~~i~~~i~~~~~ni~~v~~~~~~~~~~~~~~~i~v~n 678 (701)
T COG0317 627 PVDIEIRAYDRSGLLRDVSQVLANEKINVLGVNTRSDKDQFATMQFTIEVKN 678 (701)
T ss_pred EEEEEEEEccccchHHHHHHHHHhCCCceEEeeccccCCceEEEEEEEEECc
Confidence 4567888999999999999999999999999999885 55666667777766
No 141
>PF07009 DUF1312: Protein of unknown function (DUF1312); InterPro: IPR010739 This family consists of several bacterial proteins of around 120 residues in length. The function of this family is unknown.; PDB: 4ESN_B 1NPP_B 1M1G_D 1NPR_A 1M1H_A 2KPP_A 3LD7_C.
Probab=33.07 E-value=43 Score=29.50 Aligned_cols=44 Identities=14% Similarity=0.061 Sum_probs=31.0
Q ss_pred CCCcceeecCCCceEeeCCCCCCCCcchhhhhhhhcCCceEEEeec
Q 010728 159 AYGPGHAYKSGRSIWTSGIVSCSDHYESRSFLAMSAGFQTVVFVPA 204 (502)
Q Consensus 159 ~GlpG~a~~sg~~~Wl~~~~~~~~~~~~R~~lA~saGIqTvvcIPv 204 (502)
.+..-..-..+.-+|+..++ |+.+.|.+.---.. .=|++||+|-
T Consensus 57 ~~g~~~i~i~~g~vrv~~s~-CpdkiCv~~G~I~~-~G~~IVCLPn 100 (113)
T PF07009_consen 57 DGGYNTIEIKDGKVRVIESD-CPDKICVKTGWISR-PGQSIVCLPN 100 (113)
T ss_dssp TTCEEEEEEETTEEEEEEES-TSS-HHHHS-SB-S-TT-EEEETTT
T ss_pred CCcEEEEEEECCEEEEEECC-CCCcchhhCCCcCC-CCCEEEEcCC
Confidence 56777888889999998887 89999986533222 3389999984
No 142
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=32.57 E-value=32 Score=32.42 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCC
Q 010728 360 EAERQRREKLNQRFYALRAVVPNI 383 (502)
Q Consensus 360 ~~ER~RR~kln~~f~~LrslvP~~ 383 (502)
-.||.|-.++++.+.-|++|+|..
T Consensus 28 ~~e~~R~~~ls~~s~l~g~l~pgs 51 (173)
T KOG4447|consen 28 RKERGRKRRLSDASTLLGKLEPGS 51 (173)
T ss_pred HHHHhHHhhhhhhhhhccccCCCC
Confidence 369999999999999999999964
No 143
>PRK00227 glnD PII uridylyl-transferase; Provisional
Probab=32.48 E-value=62 Score=37.58 Aligned_cols=59 Identities=8% Similarity=0.072 Sum_probs=50.4
Q ss_pred eEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 437 AVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 437 ~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
..++|....+.|+|..|+.+|. +|.-+.+++.|..++..|.+. ++.....+...|.++|
T Consensus 632 ~~~e~r~~dr~g~l~~~~~~l~----~~~~~~~~~~g~~~~~~~~~~-~~~~r~~~~~~~~~~~ 690 (693)
T PRK00227 632 NILEVRTEDRRGALGALLGVLP----DLLWITASTPGATMIVQAALK-PGFDRATVERDVTRVL 690 (693)
T ss_pred cEEEEEeCccccHHHHHHHHhh----hhhhHhhcCCCcceEEEEEec-CcccHHHHHHHHHHHH
Confidence 5789999999999999999999 899999999999988888886 3335567888887776
No 144
>COG3978 Acetolactate synthase (isozyme II), small (regulatory) subunit [Function unknown]
Probab=31.61 E-value=2.6e+02 Score=23.79 Aligned_cols=59 Identities=8% Similarity=0.195 Sum_probs=45.2
Q ss_pred EEEEccCCCChHHHHHHHHHcCCCeEEEEEEEec--CCEEEEEEEEEeCCCChHHHHHHHHH
Q 010728 439 VRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTT--EDKVIHTFSIQTQSGASEQLKEKLLA 498 (502)
Q Consensus 439 I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~--~~~v~~~~~vk~~~g~~~~l~e~L~~ 498 (502)
+.+....+++.|.+|+...+--|+.|...+.+.. .+.+-..++|..+- ..+.|..+|..
T Consensus 6 ldl~ar~~pe~leRVLrvtrhRGF~vcamnmt~~~da~~~nie~tV~s~R-~~~lL~~QLeK 66 (86)
T COG3978 6 LDLSARFNPETLERVLRVTRHRGFRVCAMNMTAAVDAGNANIELTVDSDR-SVDLLTSQLEK 66 (86)
T ss_pred EeeeccCChHHHHHHHHHhhhcCeEEEEeecccccccccceEEEEEcCCC-ChHHHHHHHHH
Confidence 4566677899999999999999999999999986 45555566665544 56677777664
No 145
>cd04913 ACT_AKii-LysC-BS-like_1 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins. This CD includes the N-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive aspartokinase isoenzymes. The B. subtilis 168 AKII is induced by methionine and repressed and inhibited by lysine. Although Corynebacterium glutamicum is known to contain a single aspartokinase, both the succinylase and dehydrogenase variant pathways of DAP-lysine synthesis operate simultaneously in this organism. In corynebacteria and other various Gram-positive bacteria, the DAP-lysine pathway is fee
Probab=29.87 E-value=2.4e+02 Score=21.22 Aligned_cols=41 Identities=12% Similarity=0.182 Sum_probs=27.8
Q ss_pred ccCCCChHHHHHHHHHcCCCeEEEEEEEecCC-EEEEEEEEE
Q 010728 443 CPLDDHPVSSVMKTFSEHQIVAQESNVSTTED-KVIHTFSIQ 483 (502)
Q Consensus 443 c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~-~v~~~~~vk 483 (502)
.+...+.+.+++++|.+.++.+.....+...+ ....+|.+.
T Consensus 9 ~~~~~g~~~~i~~~L~~~~I~i~~i~~~~~~~~~~~is~~v~ 50 (75)
T cd04913 9 VPDKPGVAAKIFGALAEANINVDMIVQNVSRDGTTDISFTVP 50 (75)
T ss_pred CCCCCcHHHHHHHHHHHcCCeEEEEEeCCCCCCcEEEEEEec
Confidence 45678899999999999999997665443222 233345543
No 146
>cd04937 ACT_AKi-DapG-BS_2 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) strain 168), Clostridia, and Actinobacteria bacterial species. In B. subtilis, the regulation of the diaminopimelate-lysine biosynthetic pathway involves dual control by diaminopimelate and lysine, effected through separate diaminopimelate- and lysine-sensitive AK isoenzymes. AKI activity is invariant during the exponential and stationary phases of growth and is not altered by addition of amino acids to the growth medium. The role of this isoenzyme is most likely to provide a constant level of aspartyl-beta-phosphate for the biosynthesis of diaminopimelate for peptidoglycan synthesis and dipicolinate during sporulation. The BS AKI is tetrameric consisting of two alpha and two beta subunits; th
Probab=28.84 E-value=2.7e+02 Score=21.36 Aligned_cols=23 Identities=9% Similarity=0.053 Sum_probs=19.9
Q ss_pred CCCChHHHHHHHHHcCCCeEEEE
Q 010728 445 LDDHPVSSVMKTFSEHQIVAQES 467 (502)
Q Consensus 445 ~~~~~l~~im~aL~el~L~V~~a 467 (502)
...+.+.+++.+|.+.++.|...
T Consensus 13 ~~~gi~~~if~aL~~~~I~v~~~ 35 (64)
T cd04937 13 GVPGVMAKIVGALSKEGIEILQT 35 (64)
T ss_pred CCcCHHHHHHHHHHHCCCCEEEE
Confidence 46889999999999999999633
No 147
>COG4747 ACT domain-containing protein [General function prediction only]
Probab=26.33 E-value=1.4e+02 Score=27.20 Aligned_cols=45 Identities=18% Similarity=0.125 Sum_probs=37.6
Q ss_pred EEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEE
Q 010728 438 VVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSI 482 (502)
Q Consensus 438 ~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~v 482 (502)
.|.|-.++++|-|..++.+|.+.|+.+..-++.-.++.=+.-+++
T Consensus 5 QISvFlENk~GRL~~~~~~L~eagINiRA~tiAdt~dFGIiRmvV 49 (142)
T COG4747 5 QISVFLENKPGRLASVANKLKEAGINIRAFTIADTGDFGIIRMVV 49 (142)
T ss_pred EEEEEecCCcchHHHHHHHHHHcCCceEEEEeccccCcceEEEEc
Confidence 367778999999999999999999999999988888765545544
No 148
>PRK11899 prephenate dehydratase; Provisional
Probab=25.17 E-value=3.6e+02 Score=27.71 Aligned_cols=62 Identities=5% Similarity=-0.030 Sum_probs=46.0
Q ss_pred ceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEecC-CEEEEEEEEEeCCC-ChHHHHHHHH
Q 010728 436 DAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVSTTE-DKVIHTFSIQTQSG-ASEQLKEKLL 497 (502)
Q Consensus 436 ~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~~~-~~v~~~~~vk~~~g-~~~~l~e~L~ 497 (502)
...|-+..++++|.|.++|..+...|+......+-... ..--|.|-+.+.+. ....+++.|.
T Consensus 194 ktsl~~~~~~~pGaL~~vL~~Fa~~gINLtkIeSRP~~~~~~~Y~F~id~eg~~~d~~v~~aL~ 257 (279)
T PRK11899 194 VTTFVFRVRNIPAALYKALGGFATNGVNMTKLESYMVGGSFTATQFYADIEGHPEDRNVALALE 257 (279)
T ss_pred eEEEEEEeCCCCChHHHHHHHHHHcCCCeeeEEeeecCCCCceEEEEEEEECCCCCHHHHHHHH
Confidence 45555666789999999999999999999999988764 34567888888764 2234444443
No 149
>cd04933 ACT_AK1-AT_1 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the first of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine. This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. Like the Escherichia coli AKIII (LysC), Arabidopsis AK1 binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. A loop in common is involved in the binding of both Lys and S-adenosylmethionine providing an explanation for the synergistic inhibition by these effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.58 E-value=4.2e+02 Score=21.84 Aligned_cols=45 Identities=9% Similarity=0.096 Sum_probs=31.3
Q ss_pred EEEEEc---cCCCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCC
Q 010728 438 VVRVSC---PLDDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQS 486 (502)
Q Consensus 438 ~I~I~c---~~~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~ 486 (502)
+|.|.. +...|.+.+|+++|.+.++.|-....+. +. .+|++.-.+
T Consensus 3 ~i~i~~~~~~~~~g~~a~IF~~La~~~InVDmI~qs~--~s--ISftV~~sd 50 (78)
T cd04933 3 MLDITSTRMLGQYGFLAKVFSIFETLGISVDVVATSE--VS--ISLTLDPSK 50 (78)
T ss_pred EEEEEcCCCCCccCHHHHHHHHHHHcCCcEEEEEecC--CE--EEEEEEhhh
Confidence 455543 4568899999999999999998886422 33 356665433
No 150
>cd04918 ACT_AK1-AT_2 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the second of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine (SAM). This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. In its inactive state, Arabidopsis AK1 binds the effectors lysine and SAM (two molecules each) at the interface of two ACT1 domain subunits. The second ACT domain (ACT2), this CD, does not interact with an effector. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.31 E-value=2.4e+02 Score=21.77 Aligned_cols=51 Identities=6% Similarity=0.110 Sum_probs=32.6
Q ss_pred CCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 446 DDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 446 ~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
..+.+.+++++|.+.++.|.-.+.++.+-.+ ++.+.-+ +.+.....|.+.+
T Consensus 13 ~~~~~~~i~~aL~~~~I~v~~i~~g~s~~si--s~~v~~~--~~~~av~~Lh~~f 63 (65)
T cd04918 13 SSLILERAFHVLYTKGVNVQMISQGASKVNI--SLIVNDS--EAEGCVQALHKSF 63 (65)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCccceE--EEEEeHH--HHHHHHHHHHHHH
Confidence 4678999999999999999877766654332 4444332 2334444454443
No 151
>PF07485 DUF1529: Domain of Unknown Function (DUF1259); InterPro: IPR011094 This family is the lppY/lpqO homologue family. They are related to 'probable conserved lipoproteins' LppY and LpqO from Mycobacterium bovis.
Probab=22.88 E-value=2.6e+02 Score=25.37 Aligned_cols=52 Identities=17% Similarity=0.218 Sum_probs=39.9
Q ss_pred ChHHHHHHHHHcCCCeEEEEEEE--ecCCEEEEEEEEEeCCCChHHHHHHHHHHhc
Q 010728 448 HPVSSVMKTFSEHQIVAQESNVS--TTEDKVIHTFSIQTQSGASEQLKEKLLAALS 501 (502)
Q Consensus 448 ~~l~~im~aL~el~L~V~~a~~s--~~~~~v~~~~~vk~~~g~~~~l~e~L~~aLs 501 (502)
.-+-.+|++|++.||+|....-- ..+-+ +..+++...+ +...+..+|++||.
T Consensus 68 ~EV~pvi~aL~~~GI~vtAlHNH~l~e~Pr-l~ymH~~~~g-dp~~lA~~vr~Ald 121 (123)
T PF07485_consen 68 DEVNPVISALRKNGIEVTALHNHWLFEQPR-LFYMHIWGVG-DPAKLARKVRAALD 121 (123)
T ss_pred HHHHHHHHHHHHCCceEEEEecccccCCCC-EEEEEEEecC-CHHHHHHHHHHHHh
Confidence 34788999999999998766543 33334 4577887766 88899999999986
No 152
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=22.25 E-value=30 Score=39.76 Aligned_cols=55 Identities=18% Similarity=0.244 Sum_probs=45.9
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCC-----CCCCChhcHHHHHHHHHHHHHHHHHHHHHHH
Q 010728 356 LNHVEAERQRREKLNQRFYALRAVVPN-----ISKMDKASLLGDAITYITDLQMKIRVLETEK 413 (502)
Q Consensus 356 ~~H~~~ER~RR~kln~~f~~LrslvP~-----~~K~dKasiL~~aI~YIk~Lq~~v~~Le~~~ 413 (502)
..|+.++||||-.+.++|..|-+|.|. ..+..++|||. +.|+.+++.-+.+.+..
T Consensus 789 a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~ 848 (856)
T KOG3582|consen 789 AGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKI 848 (856)
T ss_pred cchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhh
Confidence 579999999999999999999999994 35678999999 77888888777766544
No 153
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=22.06 E-value=93 Score=25.96 Aligned_cols=62 Identities=18% Similarity=0.203 Sum_probs=38.6
Q ss_pred eCCCCCCCcceeecCCCceEeeCCCCCCCCcchhhhhhhhcCCceEEEeec-----CCceeeecccccccCCHHHHHHH
Q 010728 154 FRCDSAYGPGHAYKSGRSIWTSGIVSCSDHYESRSFLAMSAGFQTVVFVPA-----KSGVVELGSVKLIPEEQNVVEMV 227 (502)
Q Consensus 154 F~~G~~GlpG~a~~sg~~~Wl~~~~~~~~~~~~R~~lA~saGIqTvvcIPv-----~~GVvELGSt~~I~Ed~~lv~~v 227 (502)
++.+ .++.++++.++++ +..... +... ..+++.++|||+ .-|||.+++...-.=+..=++.+
T Consensus 50 l~~~-~~~~~~~~~~~~~-~~~~~~--~~~~--------~~~~~s~~~vPl~~~~~~~Gvl~~~~~~~~~~~~~d~~~l 116 (129)
T PF13492_consen 50 LPED-DPLIGRALETGEP-VSVPDI--DERD--------FLGIRSLLVVPLRSRDRVIGVLCLDSREPEEFSDEDLQLL 116 (129)
T ss_dssp EETT-SHHHHHHHHHTS--EEESTC--CC-T--------TTTTCEEEEEEEEETTEEEEEEEEEECTTCG-SHHHHHHH
T ss_pred CCCC-ccHHHHHHhhCCe-EEeccc--cccc--------CCCCCEEEEEEEeECCEEEEEEEEEECCCCCCCHHHHHHH
Confidence 3456 8899999999987 443221 1111 167789999999 34999998887554344333333
No 154
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=21.16 E-value=3.1e+02 Score=21.43 Aligned_cols=51 Identities=16% Similarity=0.147 Sum_probs=32.8
Q ss_pred CCChHHHHHHHHHcCCCeEEEEEEEecCCEEEEEEEEEeCCCChHHHHHHHHHHh
Q 010728 446 DDHPVSSVMKTFSEHQIVAQESNVSTTEDKVIHTFSIQTQSGASEQLKEKLLAAL 500 (502)
Q Consensus 446 ~~~~l~~im~aL~el~L~V~~a~~s~~~~~v~~~~~vk~~~g~~~~l~e~L~~aL 500 (502)
..+.+.+++++|.+.++++...+.+..+-. .++.| +..+.+..-+.|.+++
T Consensus 14 ~~gv~~ki~~~L~~~~I~v~~i~~~~s~~~--is~~V--~~~~~~~av~~Lh~~f 64 (66)
T cd04915 14 TPGVLARGLAALAEAGIEPIAAHQSMRNVD--VQFVV--DRDDYDNAIKALHAAL 64 (66)
T ss_pred cchHHHHHHHHHHHCCCCEEEEEecCCeeE--EEEEE--EHHHHHHHHHHHHHHH
Confidence 467899999999999999988776665322 23344 3323344455555544
No 155
>TIGR02079 THD1 threonine dehydratase. This model represents threonine dehydratase, the first step in the pathway converting threonine into isoleucine. At least two other clades of biosynthetic threonine dehydratases have been characterized by models TIGR01124 and TIGR01127. Those sequences described by this model are exclusively found in species containg the rest of the isoleucine pathway and which are generally lacking in members of the those other two clades of threonine dehydratases. Members of this clade are also often gene clustered with other elements of the isoleucine pathway.
Probab=20.95 E-value=6.2e+02 Score=27.26 Aligned_cols=53 Identities=6% Similarity=-0.023 Sum_probs=39.2
Q ss_pred CCceEEEEEccCCCChHHHHHHHHHcCCCeEEEEEEEe-c-CCEEEEEEEEEeCC
Q 010728 434 HEDAVVRVSCPLDDHPVSSVMKTFSEHQIVAQESNVST-T-EDKVIHTFSIQTQS 486 (502)
Q Consensus 434 ~~~~~I~I~c~~~~~~l~~im~aL~el~L~V~~a~~s~-~-~~~v~~~~~vk~~~ 486 (502)
+..+.+++.-|.++|-|.++++.+-..+-+|.+.+--. . -+.....+.+++++
T Consensus 323 ~r~~~~~v~ipdrPGaL~~~l~~i~~~~~NI~~~~y~~~~~~~~~~v~v~iE~~~ 377 (409)
T TIGR02079 323 GLKHYFIVRFPQRPGALREFLNDVLGPNDDITRFEYTKKSNRETGPALIGIELND 377 (409)
T ss_pred CCEEEEEEEeCCCCCHHHHHHHHHhcCCCcEEEEEeeecCCCCeEEEEEEEEeCC
Confidence 56788999999999999999996766776888777652 1 13334457777765
Done!